I may be missing something, but right now, and without any changes to
Galaxy, there's no reason why a new tool should not wrap an existing
(or new) command line executable program that uses web services to do
something interesting!
I have an rgenetics tool that uses the Haploview java executable in
command line mode to prepare image files of LD patterns in the Hapmap
populations with an inhouse sample over a region, and then stitches
them together into a single image so they can be visually compared -
Galaxy doesn't know or care if the tool executable uses web services -
the job runner sets up the call and then deals with the resulting tool
outputs correctly - as long as the cluster node executing the tool has
internet access, it can interact with the web services transparently -
as Greg says, the tool will be fragile to changes in the web service
call syntax but that's always a problem in the long term.
I agree with Greg that bringing web services interfaces *directly*
into the existing Galaxy framework does not appear to have a high
priority at this time and I'm not even sure that it makes an awful lot
of sense in the long term - especially since we can let web service
interaction live out in tool space where it already works? Is there a
specific use-case anyone has in mind where the web services interface
really needs to be brought inside the framework itself?
On Tue, Sep 30, 2008 at 2:00 AM, <galaxy-dev-request(a)bx.psu.edu> wrote:
>
> Today's Topics:
>
> 1. Re: Galaxy with web services (Greg Von Kuster)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 29 Sep 2008 09:52:39 -0400
> From: Greg Von Kuster <ghv2(a)psu.edu>
> Subject: Re: [galaxy-dev] Galaxy with web services
> To: Praveen Agrawal <praveen(a)scfbio-iitd.res.in>
> Cc: galaxy-dev(a)bx.psu.edu
> Message-ID: <48E0DDA7.1090200(a)psu.edu>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>
> Hello Praveen,
>
> Currently web-based interaction is only used for external data sources
> (biomart, UCSC table browser, most other things under "Get Data"). For
> the other tools, we generate a command line based on the user input,
> which Galaxy then runs. The motivation for this is control and trust.
> One of our major goals with Galaxy is to ensure reproducibility, and
> relying on web services which can change their interfaces or behavior
> makes this very challenging. We are certainly interested in supporting
> web services in the Galaxy framework, but implementation is not yet
> under way. Several of the methods currently in ~/tools/__init__.py (
> among others ) will need to evolve and grow in order to support a web
> services interface for remote tools. We'll certainly keep you informed
> as we begin to support this, but it may be a while...
>
> Greg Von Kuster
> Galaxy Development Team
>
>
> Praveen Agrawal wrote:
>> Hi,
>> I am trying to use Galaxy at my site and cann't figure out Galaxy with web
>> services. I understand that it's possible to integrate a data source using
>> WSDL/SOAP. Is the same possible for a remote tool as well?
--
python -c "foo = map(None,'moc.liamg(a)surazal.ssor'); foo.reverse();
print ''.join(foo)"
2
3
30 Sep '08
details: http://www.bx.psu.edu/hg/galaxy/rev/1706aadf16b2
changeset: 1534:1706aadf16b2
user: Greg Von Kuster <greg(a)bx.psu.edu>
date: Mon Sep 29 10:37:54 2008 -0400
description:
Fix for disk usage report in the webapps system controller.
1 file(s) affected in this change:
lib/galaxy/webapps/reports/controllers/system.py
diffs (20 lines):
diff -r 3830fefb07da -r 1706aadf16b2 lib/galaxy/webapps/reports/controllers/system.py
--- a/lib/galaxy/webapps/reports/controllers/system.py Fri Sep 26 14:22:37 2008 -0400
+++ b/lib/galaxy/webapps/reports/controllers/system.py Mon Sep 29 10:37:54 2008 -0400
@@ -157,13 +157,15 @@
disk_usage = self.get_disk_usage( file_path )
min_file_size = 2**32 # 4 Gb
file_size_str = nice_size( min_file_size )
+ hda = trans.model.HistoryDatasetAssociation
d = trans.model.Dataset
datasets = []
where = ( d.table.c.file_size > min_file_size )
dataset_rows = d.query().filter( where ).order_by( desc( d.table.c.file_size ) )
for dataset in dataset_rows:
- datasets.append( ( dataset.id, str( dataset.update_time )[0:10], dataset.history_id, dataset.deleted, dataset.file_size ) )
+ history_dataset_assoc = hda.filter_by( dataset_id=dataset.id ).order_by( desc( hda.table.c.history_id ) ).all()[0]
+ datasets.append( ( dataset.id, str( dataset.update_time )[0:10], history_dataset_assoc.history_id, dataset.deleted, dataset.file_size ) )
return file_path, disk_usage, datasets, file_size_str
def nice_size( size ):
1
0
30 Sep '08
details: http://www.bx.psu.edu/hg/galaxy/rev/931d6ca549d3
changeset: 1535:931d6ca549d3
user: guru
date: Tue Sep 30 15:30:57 2008 -0400
description:
Modified the way biomart tool runs: output generation will be completed before exec_afer_process hook is called.
4 file(s) affected in this change:
tools/data_source/biomart.py
tools/data_source/biomart.xml
tools/data_source/biomart_filter.py
tools/data_source/biomart_test.xml
diffs (148 lines):
diff -r 1706aadf16b2 -r 931d6ca549d3 tools/data_source/biomart.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/data_source/biomart.py Tue Sep 30 15:30:57 2008 -0400
@@ -0,0 +1,55 @@
+#!/usr/bin/env python
+#Retreives data from BIOMART and stores in a file. Biomart parameters are provided in the input/output file.
+#guruprasad Ananda
+
+import urllib, sys, os, gzip, tempfile, shutil
+from galaxy import eggs
+
+assert sys.version_info[:2] >= ( 2, 4 )
+
+def stop_err( msg ):
+ sys.stderr.write( msg )
+ sys.exit()
+
+def __main__():
+ filename = sys.argv[1]
+ params = {}
+ for line in open(filename, 'r'):
+ try:
+ line = line.strip()
+ fields = line.split('\t')
+ params[fields[0]] = fields[1]
+ except:
+ continue
+
+ URL = params.get( 'URL', None )
+ if not URL:
+ open( filename, 'w' ).write( "" )
+ stop_err( 'Datasource has not sent back a URL parameter.' )
+ URL = URL + '&_export=1&GALAXY_URL=0'
+ CHUNK_SIZE = 2**20 # 1Mb
+ MAX_SIZE = CHUNK_SIZE * 100
+ try:
+ page = urllib.urlopen(URL)
+ except Exception, exc:
+ stop_err('Problems connecting to %s (%s)' % (URL, exc) )
+
+ fp = open(filename, 'w')
+ size = 0
+ max_size_exceeded = False
+ while 1:
+ chunk = page.read(CHUNK_SIZE)
+ if not chunk:
+ break
+ size += len(chunk)
+ if size > MAX_SIZE:
+ max_size_exceeded = True
+ break
+ fp.write(chunk)
+ fp.close()
+
+ if max_size_exceeded:
+ print 'Maximum data size of 100 MB exceeded, incomplete data retrieval.'
+
+if __name__ == "__main__":
+ __main__()
diff -r 1706aadf16b2 -r 931d6ca549d3 tools/data_source/biomart.xml
--- a/tools/data_source/biomart.xml Mon Sep 29 10:37:54 2008 -0400
+++ b/tools/data_source/biomart.xml Tue Sep 30 15:30:57 2008 -0400
@@ -1,14 +1,14 @@
<?xml version="1.0"?>
<tool name="BioMart" id="biomart">
-
<description>Central server</description>
-
- <command/>
-
+ <command interpreter="python">
+ biomart.py
+ $output
+ </command>
<inputs action="http://www.biomart.org/biomart/martview" check_values="false" method="get" target="_top">
<display>go to BioMart Central $GALAXY_URL</display>
<param name="GALAXY_URL" type="baseurl" value="/tool_runner/biomart" />
- </inputs>
+ </inputs>
<uihints minwidth="800"/>
diff -r 1706aadf16b2 -r 931d6ca549d3 tools/data_source/biomart_filter.py
--- a/tools/data_source/biomart_filter.py Mon Sep 29 10:37:54 2008 -0400
+++ b/tools/data_source/biomart_filter.py Tue Sep 30 15:30:57 2008 -0400
@@ -14,41 +14,16 @@
data_type = sniff.guess_ext( data.file_name, sniff_order=app.datatypes_registry.sniff_order )
data = app.datatypes_registry.change_datatype(data, data_type)
data.name = data_name
+ #store BIOMART parameters temporarily in output file
+ out = open(data.file_name,'w')
+ for key, value in param_dict.items():
+ print >> out, "%s\t%s" % (key,value)
+ out.close()
out_data[name] = data
+
def exec_after_process(app, inp_data, out_data, param_dict, tool=None, stdout=None, stderr=None):
- """Verifies the data after the run"""
- URL = param_dict.get( 'URL', None )
- if not URL:
- raise Exception('Datasource has not sent back a URL parameter')
- URL = URL + '&_export=1&GALAXY_URL=0'
- CHUNK_SIZE = 2**20 # 1Mb
- MAX_SIZE = CHUNK_SIZE * 100
- try:
- page = urllib.urlopen(URL)
- except Exception, exc:
- raise Exception('Problems connecting to %s (%s)' % (URL, exc) )
name, data = out_data.items()[0]
- fp = open(data.file_name, 'wb')
- size = 0
- max_size_exceeded = False
-
- while 1:
- chunk = page.read(CHUNK_SIZE)
- if not chunk:
- break
- size += len(chunk)
- if size > MAX_SIZE:
- max_size_exceeded = True
- break
- fp.write(chunk)
- fp.close()
-
- if max_size_exceeded:
- data.info = 'Maximum data size of 100 MB exceeded, incomplete data retrieval.'
- else:
- data.info = data.name
-
if not isinstance(data.datatype, datatypes.interval.Bed) and isinstance(data.datatype, datatypes.interval.Interval):
#Set meta data, format file to be valid interval type
data.set_meta(first_line_is_header=True)
diff -r 1706aadf16b2 -r 931d6ca549d3 tools/data_source/biomart_test.xml
--- a/tools/data_source/biomart_test.xml Mon Sep 29 10:37:54 2008 -0400
+++ b/tools/data_source/biomart_test.xml Tue Sep 30 15:30:57 2008 -0400
@@ -3,7 +3,10 @@
<description>Test server</description>
- <command/>
+ <command interpreter="python">
+ biomart.py
+ $output
+ </command>
<inputs action="http://test.biomart.org/biomart/martview" check_values="false" method="get" target="_top">
<display>go to BioMart Central $GALAXY_URL</display>
1
0
30 Sep '08
details: http://www.bx.psu.edu/hg/galaxy/rev/3830fefb07da
changeset: 1533:3830fefb07da
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Fri Sep 26 14:22:37 2008 -0400
description:
Update to implicit converter discovery. Will now allow the use of converters that create datatypes that are a subclass of what is needed by the tool.
i.e. If tool input requires 'interval', and a datatype has a BED converter available but no interval converter, the BED converter can now be used.
5 file(s) affected in this change:
lib/galaxy/datatypes/data.py
lib/galaxy/datatypes/registry.py
lib/galaxy/model/__init__.py
lib/galaxy/tools/actions/__init__.py
lib/galaxy/tools/parameters/basic.py
diffs (138 lines):
diff -r 3b6771227a43 -r 3830fefb07da lib/galaxy/datatypes/data.py
--- a/lib/galaxy/datatypes/data.py Fri Sep 26 09:10:04 2008 -0400
+++ b/lib/galaxy/datatypes/data.py Fri Sep 26 14:22:37 2008 -0400
@@ -185,6 +185,10 @@
"""Returns available converters by type for this dataset"""
return datatypes_registry.get_converters_by_datatype(original_dataset.ext)
+ def find_conversion_destination( self, dataset, accepted_formats, datatypes_registry, **kwd ):
+ """Returns ( target_ext, exisiting converted dataset )"""
+ return datatypes_registry.find_conversion_destination_for_dataset_by_extensions( dataset, accepted_formats, **kwd )
+
def convert_dataset(self, trans, original_dataset, target_type, return_output = False, visible = True ):
"""This function adds a job to the queue to convert a dataset to another type. Returns a message about success/failure."""
converter = trans.app.datatypes_registry.get_converter_by_target_type( original_dataset.ext, target_type )
diff -r 3b6771227a43 -r 3830fefb07da lib/galaxy/datatypes/registry.py
--- a/lib/galaxy/datatypes/registry.py Fri Sep 26 09:10:04 2008 -0400
+++ b/lib/galaxy/datatypes/registry.py Fri Sep 26 14:22:37 2008 -0400
@@ -233,3 +233,16 @@
if target_ext in converters.keys():
return converters[target_ext]
return None
+ def find_conversion_destination_for_dataset_by_extensions( self, dataset, accepted_formats, converter_safe = True ):
+ """Returns ( target_ext, exisiting converted dataset )"""
+ for convert_ext in self.get_converters_by_datatype( dataset.ext ):
+ if isinstance( self.get_datatype_by_extension( convert_ext ), accepted_formats ):
+ datasets = dataset.get_converted_files_by_type( convert_ext )
+ if datasets:
+ ret_data = datasets[0]
+ elif not converter_safe:
+ continue
+ else:
+ ret_data = None
+ return ( convert_ext, ret_data )
+ return ( None, None )
\ No newline at end of file
diff -r 3b6771227a43 -r 3830fefb07da lib/galaxy/model/__init__.py
--- a/lib/galaxy/model/__init__.py Fri Sep 26 09:10:04 2008 -0400
+++ b/lib/galaxy/model/__init__.py Fri Sep 26 14:22:37 2008 -0400
@@ -254,6 +254,10 @@
def get_converter_types(self):
return self.datatype.get_converter_types( self, datatypes_registry)
+
+ def find_conversion_destination( self, accepted_formats, **kwd ):
+ """Returns ( target_ext, exisiting converted dataset )"""
+ return self.datatype.find_conversion_destination( self, accepted_formats, datatypes_registry, **kwd )
def copy( self, copy_children = False, parent_id = None ):
des = HistoryDatasetAssociation( hid=self.hid, name=self.name, info=self.info, blurb=self.blurb, peek=self.peek, extension=self.extension, dbkey=self.dbkey, metadata=self._metadata, dataset = self.dataset, visible=self.visible, deleted=self.deleted, parent_id=parent_id, copied_from_history_dataset_association = self )
diff -r 3b6771227a43 -r 3830fefb07da lib/galaxy/tools/actions/__init__.py
--- a/lib/galaxy/tools/actions/__init__.py Fri Sep 26 09:10:04 2008 -0400
+++ b/lib/galaxy/tools/actions/__init__.py Fri Sep 26 14:22:37 2008 -0400
@@ -29,22 +29,21 @@
def visitor( prefix, input, value, parent = None ):
def process_dataset( data ):
if data and not isinstance( data.datatype, input.formats ):
- for target_ext in input.extensions:
- if target_ext in data.get_converter_types():
- data.refresh() #need to refresh incase this conversion just took place, i.e. input above in tool performed the same conversion
- datasets = data.get_converted_files_by_type( target_ext )
- if datasets: data = datasets[0]
- elif input.converter_safe( param_values, trans ):
- #run converter here
- assoc = trans.app.model.ImplicitlyConvertedDatasetAssociation( parent = data, file_type = target_ext, metadata_safe = False )
- new_data = data.datatype.convert_dataset( trans, data, target_ext, return_output = True, visible = False ).values()[0]
- new_data.hid = data.hid
- new_data.name = data.name
- new_data.flush()
- assoc.dataset = new_data
- assoc.flush()
- data = new_data
- break
+ data.refresh() #need to refresh in case this conversion just took place, i.e. input above in tool performed the same conversion
+ target_ext, converted_dataset = data.find_conversion_destination( input.formats, converter_safe = input.converter_safe( param_values, trans ) )
+ if target_ext:
+ if converted_dataset:
+ data = converted_dataset
+ else:
+ #run converter here
+ assoc = trans.app.model.ImplicitlyConvertedDatasetAssociation( parent = data, file_type = target_ext, metadata_safe = False )
+ new_data = data.datatype.convert_dataset( trans, data, target_ext, return_output = True, visible = False ).values()[0]
+ new_data.hid = data.hid
+ new_data.name = data.name
+ new_data.flush()
+ assoc.dataset = new_data
+ assoc.flush()
+ data = new_data
return data
if isinstance( input, DataToolParameter ):
if isinstance( value, list ):
diff -r 3b6771227a43 -r 3830fefb07da lib/galaxy/tools/parameters/basic.py
--- a/lib/galaxy/tools/parameters/basic.py Fri Sep 26 09:10:04 2008 -0400
+++ b/lib/galaxy/tools/parameters/basic.py Fri Sep 26 14:22:37 2008 -0400
@@ -1059,16 +1059,12 @@
selected = ( value and ( data in value ) )
field.add_option( "%s: %s" % ( hid, data.name[:30] ), data.id, selected )
else:
- for target_ext in self.extensions:
- if target_ext in data.get_converter_types():
- datasets = data.get_converted_files_by_type( target_ext )
- if datasets:
- data = datasets[0]
- elif not self.converter_safe( other_values, trans ):
- continue
- selected = ( value and ( data in value ) )
- field.add_option( "%s: (as %s) %s" % ( hid, target_ext, data.name[:30] ), data.id, selected )
- break #we only report the first valid converter, assume self.extensions is a priority list
+ target_ext, converted_dataset = data.find_conversion_destination( self.formats, converter_safe = self.converter_safe( other_values, trans ) )
+ if target_ext:
+ if converted_dataset:
+ data = converted_dataset
+ selected = ( value and ( data in value ) )
+ field.add_option( "%s: (as %s) %s" % ( hid, target_ext, data.name[:30] ), data.id, selected )
# Also collect children via association object
dataset_collector( data.children, hid )
dataset_collector( history.datasets, None )
@@ -1111,9 +1107,9 @@
pass #no valid options
def dataset_collector( datasets ):
def is_convertable( dataset ):
- for target_ext in self.extensions:
- if target_ext in data.get_converter_types():
- return True
+ target_ext, converted_dataset = dataset.find_conversion_destination( self.formats, converter_safe = True ) #need to assume converter_safe = True, since we don't know about other parameter values here
+ if target_ext is not None:
+ return True
return False
for i, data in enumerate( datasets ):
if data.visible and not data.deleted and data.state not in [data.states.ERROR] and ( isinstance( data.datatype, self.formats) or is_convertable( data ) ):
@@ -1184,7 +1180,7 @@
return []
def converter_safe( self, other_values, trans ):
- if trans.workflow_building_mode:
+ if not hasattr( trans, 'workflow_building_mode' ) or trans.workflow_building_mode:
return False
converter_safe = [True]
def visitor( prefix, input, value, parent = None ):
1
0
Hi,
I am trying to use Galaxy at my site and cann't figure out Galaxy with web
services. I understand that it's possible to integrate a data source using
WSDL/SOAP. Is the same possible for a remote tool as well?
Regards,
Praveen
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
http://www.scfbio-iitd.res.in
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
2
1
26 Sep '08
details: http://www.bx.psu.edu/hg/galaxy/rev/aa1088e4c6c6
changeset: 1531:aa1088e4c6c6
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Thu Sep 25 15:03:05 2008 -0400
description:
Enhance the way dataset.set_meta() behaves, by adding a flag 'overwrite', which when False will only overwrite metadata values that are not previously set or are not accessable for user modification.
7 file(s) affected in this change:
lib/galaxy/datatypes/data.py
lib/galaxy/datatypes/interval.py
lib/galaxy/datatypes/metadata.py
lib/galaxy/datatypes/registry.py
lib/galaxy/datatypes/sequence.py
lib/galaxy/datatypes/tabular.py
lib/galaxy/jobs/__init__.py
diffs (269 lines):
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/data.py
--- a/lib/galaxy/datatypes/data.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/data.py Thu Sep 25 15:03:05 2008 -0400
@@ -81,7 +81,7 @@
# flag the object as modified for SQLAlchemy.
if copy_from:
dataset.metadata = copy_from.metadata
- def set_meta( self, dataset, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
"""Unimplemented method, allows guessing of metadata from contents of file"""
return True
def set_readonly_meta( self, dataset ):
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/interval.py
--- a/lib/galaxy/datatypes/interval.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/interval.py Thu Sep 25 15:03:05 2008 -0400
@@ -64,8 +64,8 @@
else:
dataset.blurb = "%s regions" % util.commaify( str( line_count ) )
- def set_meta( self, dataset, first_line_is_header=False, **kwd ):
- Tabular.set_meta( self, dataset, skip=0 )
+ def set_meta( self, dataset, overwrite = True, first_line_is_header = False, **kwd ):
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = 0 )
"""Tries to guess from the line the location number of the column for the chromosome, region start-end and strand"""
if dataset.has_data():
@@ -80,7 +80,8 @@
for index, col_name in enumerate( elems ):
if col_name in valid:
meta_name = valid[col_name]
- setattr( dataset.metadata, meta_name, index+1 )
+ if overwrite or not dataset.metadata.element_is_set( meta_name ):
+ setattr( dataset.metadata, meta_name, index+1 )
values = alias_spec[ meta_name ]
start = values.index( col_name )
for lower in values[ start: ]:
@@ -94,26 +95,32 @@
if len( elems ) > 2:
for str in data.col1_startswith:
if line.lower().startswith( str ):
- dataset.metadata.chromCol = 1
+ if overwrite or not dataset.metadata.element_is_set( 'chromCol' ):
+ dataset.metadata.chromCol = 1
try:
int( elems[1] )
- dataset.metadata.startCol = 2
+ if overwrite or not dataset.metadata.element_is_set( 'startCol' ):
+ dataset.metadata.startCol = 2
except:
pass # Metadata default will be used
try:
int( elems[2] )
- dataset.metadata.endCol = 3
+ if overwrite or not dataset.metadata.element_is_set( 'endCol' ):
+ dataset.metadata.endCol = 3
except:
pass # Metadata default will be used
if len( elems ) > 3:
try:
int( elems[3] )
except:
- dataset.metadata.nameCol = 4
+ if overwrite or not dataset.metadata.element_is_set( 'nameCol' ):
+ dataset.metadata.nameCol = 4
if len( elems ) < 6 or elems[5] not in data.valid_strand:
- dataset.metadata.strandCol = 0
+ if overwrite or not dataset.metadata.element_is_set( 'strandCol' ):
+ dataset.metadata.strandCol = 0
else:
- dataset.metadata.strandCol = 6
+ if overwrite or not dataset.metadata.element_is_set( 'strandCol' ):
+ dataset.metadata.strandCol = 6
metadata_is_set = True
break
if metadata_is_set:
@@ -286,8 +293,9 @@
MetadataElement( name="endCol", default=3, desc="End column", param=metadata.ColumnParameter )
MetadataElement( name="strandCol", desc="Strand column (click box & select)", param=metadata.ColumnParameter, optional=True, no_value=0 )
MetadataElement( name="columns", default=3, desc="Number of columns", readonly=True, visible=False )
+ ###do we need to repeat these? they are the same as should be inherited from interval type
- def set_meta( self, dataset, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
"""Sets the metadata information for datasets previously determined to be in bed format."""
i = 0
if dataset.has_data():
@@ -300,15 +308,18 @@
for startswith in data.col1_startswith:
if line.lower().startswith( startswith ):
if len( elems ) > 3:
- dataset.metadata.nameCol = 4
+ if overwrite or not dataset.metadata.element_is_set( 'nameCol' ):
+ dataset.metadata.nameCol = 4
if len(elems) < 6:
- dataset.metadata.strandCol = 0
+ if overwrite or not dataset.metadata.element_is_set( 'strandCol' ):
+ dataset.metadata.strandCol = 0
else:
- dataset.metadata.strandCol = 6
+ if overwrite or not dataset.metadata.element_is_set( 'strandCol' ):
+ dataset.metadata.strandCol = 6
metadata_set = True
break
if metadata_set: break
- Tabular.set_meta( self, dataset, skip=i )
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = i )
def as_ucsc_display_file( self, dataset, **kwd ):
"""Returns file contents with only the bed data. If bed 6+, treat as interval."""
@@ -443,7 +454,7 @@
Tabular.__init__(self, **kwd)
self.add_display_app ( 'elegans', 'display in GBrowse', 'as_gbrowse_display_file', 'gbrowse_links' )
- def set_meta( self, dataset, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
i = 0
for i, line in enumerate( file ( dataset.file_name ) ):
line = line.rstrip('\r\n')
@@ -456,7 +467,7 @@
break
except:
pass
- Tabular.set_meta( self, dataset, skip=i )
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = i )
def make_html_table( self, dataset, skipchars=[] ):
"""Create HTML table, used for displaying peek"""
@@ -589,7 +600,7 @@
"""Initialize datatype, by adding GBrowse display app"""
Gff.__init__(self, **kwd)
- def set_meta( self, dataset, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
i = 0
for i, line in enumerate( file ( dataset.file_name ) ):
line = line.rstrip('\r\n')
@@ -614,7 +625,7 @@
phase = elems[7]
if valid_start and valid_end and start < end and strand in self.valid_gff3_strand and phase in self.valid_gff3_phase:
break
- Tabular.set_meta( self, dataset, skip=i )
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = i )
def sniff( self, filename ):
"""
@@ -692,7 +703,7 @@
def make_html_table( self, dataset ):
return Tabular.make_html_table( self, dataset, skipchars=['track', '#'] )
- def set_meta( self, dataset, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
i = 0
for i, line in enumerate( file ( dataset.file_name ) ):
line = line.rstrip('\r\n')
@@ -705,7 +716,7 @@
for str in data.col1_startswith:
if elems[0].lower().startswith(str):
break
- Tabular.set_meta( self, dataset, skip=i )
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = i )
def sniff( self, filename ):
"""
@@ -746,8 +757,8 @@
"""Initialize interval datatype, by adding UCSC display app"""
Tabular.__init__(self, **kwd)
self.add_display_app ( 'ucsc', 'display at UCSC', 'as_ucsc_display_file', 'ucsc_links' )
- def set_meta( self, dataset, **kwd ):
- Tabular.set_meta( self, dataset, skip=1 )
+ def set_meta( self, dataset, overwrite = True, **kwd ):
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = 1 )
def display_peek( self, dataset ):
"""Returns formated html of peek"""
return Tabular.make_html_table( self, dataset, skipchars=['track', '#'] )
@@ -858,8 +869,8 @@
Tabular.__init__(self, **kwd)
self.add_display_app ('elegans', 'display in GBrowse', 'as_gbrowse_display_file', 'gbrowse_links' )
- def set_meta( self, dataset, **kwd ):
- Tabular.set_meta( self, dataset, skip=1 )
+ def set_meta( self, dataset, overwrite = True, **kwd ):
+ Tabular.set_meta( self, dataset, overwrite = overwrite, skip = 1 )
def make_html_table( self, dataset ):
return Tabular.make_html_table( self, dataset, skipchars=['track', '#'] )
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/metadata.py
--- a/lib/galaxy/datatypes/metadata.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/metadata.py Thu Sep 25 15:03:05 2008 -0400
@@ -185,6 +185,8 @@
self.parent._metadata = value
else:
self.bunch[name] = value
+ def element_is_set( self, name ):
+ return bool( self.bunch.get( name, False ) )
MetadataElement = Statement(MetadataElementSpec)
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/registry.py
--- a/lib/galaxy/datatypes/registry.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/registry.py Thu Sep 25 15:03:05 2008 -0400
@@ -190,8 +190,7 @@
# initialization.
if data.has_data():
data.init_meta( copy_from=data )
- if isinstance( data.datatype, tabular.Tabular ):
- data.set_readonly_meta()
+ data.set_meta( overwrite = False )
data.set_peek()
return data
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/sequence.py
--- a/lib/galaxy/datatypes/sequence.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/sequence.py Thu Sep 25 15:03:05 2008 -0400
@@ -164,7 +164,7 @@
def init_meta( self, dataset, copy_from=None ):
Alignment.init_meta( self, dataset, copy_from=copy_from )
- def set_meta( self, dataset, first_line_is_header=False, **kwd ):
+ def set_meta( self, dataset, overwrite = True, **kwd ):
"""
Parses and sets species and chromosomes from MAF files.
"""
@@ -190,6 +190,7 @@
if i > 100000: break
except:
pass
+ #these metadata values are not accessable by users, always overwrite
dataset.metadata.species = species
dataset.metadata.species_chromosomes = species_chromosomes
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/datatypes/tabular.py
--- a/lib/galaxy/datatypes/tabular.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/datatypes/tabular.py Thu Sep 25 15:03:05 2008 -0400
@@ -26,8 +26,8 @@
data.Text.init_meta( self, dataset, copy_from=copy_from )
def set_readonly_meta( self, dataset, skip=1, **kwd ):
"""Resets the values of readonly metadata elements."""
- Tabular.set_meta( self, dataset, skip=skip )
- def set_meta( self, dataset, skip=1, **kwd ):
+ Tabular.set_meta( self, dataset, overwrite = True, skip = skip )
+ def set_meta( self, dataset, overwrite = True, skip = 1, **kwd ):
"""
Tries to determine the number of columns as well as those columns
that contain numerical values in the dataset. A skip parameter is
@@ -35,6 +35,7 @@
their data type classes are responsible to determine how many invalid
comment lines should be skipped.
"""
+ #we treat 'overwrite' as always True (we always want to set tabular metadata when called)
if dataset.has_data():
column_types = []
diff -r 58ea8585bd88 -r aa1088e4c6c6 lib/galaxy/jobs/__init__.py
--- a/lib/galaxy/jobs/__init__.py Thu Sep 25 10:19:56 2008 -0400
+++ b/lib/galaxy/jobs/__init__.py Thu Sep 25 15:03:05 2008 -0400
@@ -409,12 +409,7 @@
dataset.blurb = "error"
elif dataset.has_data():
# Only set metadata values if they are missing...
- if dataset.missing_meta():
- dataset.set_meta()
- else:
- # ...however, some tools add / remove columns,
- # so we have to reset the readonly metadata values
- dataset.set_readonly_meta()
+ dataset.set_meta( overwrite_exisiting = False )
dataset.set_peek()
else:
dataset.blurb = "empty"
1
0
details: http://www.bx.psu.edu/hg/galaxy/rev/3b6771227a43
changeset: 1532:3b6771227a43
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Fri Sep 26 09:10:04 2008 -0400
description:
Fix for interval to bed converter.
1 file(s) affected in this change:
lib/galaxy/datatypes/converters/interval_to_bed_converter.py
diffs (11 lines):
diff -r aa1088e4c6c6 -r 3b6771227a43 lib/galaxy/datatypes/converters/interval_to_bed_converter.py
--- a/lib/galaxy/datatypes/converters/interval_to_bed_converter.py Thu Sep 25 15:03:05 2008 -0400
+++ b/lib/galaxy/datatypes/converters/interval_to_bed_converter.py Fri Sep 26 09:10:04 2008 -0400
@@ -38,6 +38,7 @@
skipped_lines = 0
first_skipped_line = 0
out = open( output_name,'w' )
+ count = 0
for count, region in enumerate( bx.intervals.io.NiceReaderWrapper( open( input_name, 'r' ), chrom_col=chromCol, start_col=startCol, end_col=endCol, strand_col=strandCol, fix_strand=True, return_header=False, return_comments=False ) ):
try:
if nameCol >= 0:
1
0
details: http://www.bx.psu.edu/hg/galaxy/rev/58ea8585bd88
changeset: 1530:58ea8585bd88
user: Nate Coraor <nate(a)bx.psu.edu>
date: Thu Sep 25 10:19:56 2008 -0400
description:
Update check_galaxy for new twill.
1 file(s) affected in this change:
scripts/check_galaxy.py
diffs (21 lines):
diff -r ad3f61801a82 -r 58ea8585bd88 scripts/check_galaxy.py
--- a/scripts/check_galaxy.py Wed Sep 24 18:20:39 2008 -0400
+++ b/scripts/check_galaxy.py Thu Sep 25 10:19:56 2008 -0400
@@ -190,7 +190,7 @@
tc.fv("1", "password", pw)
tc.submit("Login")
tc.code(200)
- if len(tc.get_browser()._browser.forms()) > 0:
+ if len(tc.get_browser().get_all_forms()) > 0:
# uh ohs, fail
p = userParser()
p.feed(tc.browser.get_html())
@@ -210,7 +210,7 @@
tc.fv("1", "confirm", pw)
tc.submit("Create")
tc.code(200)
- if len(tc.get_browser()._browser.forms()) > 0:
+ if len(tc.get_browser().get_all_forms()) > 0:
p = userParser()
p.feed(tc.browser.get_html())
if p.already_exists:
1
0
details: http://www.bx.psu.edu/hg/galaxy/rev/b6420d2f247c
changeset: 1527:b6420d2f247c
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Wed Sep 24 13:52:01 2008 -0400
description:
Some metadata updates.
3 file(s) affected in this change:
lib/galaxy/datatypes/metadata.py
lib/galaxy/model/__init__.py
lib/galaxy/tools/__init__.py
diffs (84 lines):
diff -r 38e533287df4 -r b6420d2f247c lib/galaxy/datatypes/metadata.py
--- a/lib/galaxy/datatypes/metadata.py Wed Sep 24 11:14:44 2008 -0400
+++ b/lib/galaxy/datatypes/metadata.py Wed Sep 24 13:52:01 2008 -0400
@@ -155,11 +155,8 @@
else: self.spec = spec
#set default metadata values
- if not self.parent._metadata:
+ if self.parent._metadata is None:
self.parent._metadata = {}
- for name, value in self.spec.items():
- if name not in self.bunch:
- self.bunch[name] = value.default
def __iter__(self):
return self.bunch.__iter__()
@@ -177,12 +174,10 @@
def __getattr__(self, name):
if name == "bunch":
return self.parent._metadata
- rval = self.bunch.get( name )
- if rval is None:
- rval = self.spec.get( name, None )
- if rval:
- rval = rval.no_value
- return rval
+ if name in self.bunch:
+ return self.bunch[name]
+ if name in self.spec:
+ return self.spec[name].default
def __setattr__(self, name, value):
if name in ["parent","spec"]:
self.__dict__[name] = value
diff -r 38e533287df4 -r b6420d2f247c lib/galaxy/model/__init__.py
--- a/lib/galaxy/model/__init__.py Wed Sep 24 11:14:44 2008 -0400
+++ b/lib/galaxy/model/__init__.py Wed Sep 24 13:52:01 2008 -0400
@@ -5,7 +5,7 @@
the relationship cardinalities are obvious (e.g. prefer Dataset to Data)
"""
-import os.path, os, errno
+import os.path, os, errno, copy
import sha
import galaxy.datatypes
from galaxy.util.bunch import Bunch
@@ -114,7 +114,8 @@
self.extension = extension
self.designation = designation
self.metadata = metadata or dict()
- self.dbkey = dbkey
+ if dbkey: #dbkey is stored in metadata, only set if non-zero, or else we could clobber one supplied by input 'metadata'
+ self.dbkey = dbkey
self.deleted = deleted
self.visible = visible
# Relationships
@@ -164,7 +165,7 @@
return self._metadata_collection
def set_metadata( self, bunch ):
# Needs to accept a MetadataCollection, a bunch, or a dict
- self._metadata = dict( bunch.items() )
+ self._metadata = dict( [ ( key, copy.deepcopy( value ) ) for key, value in bunch.items() ] )
metadata = property( get_metadata, set_metadata )
"""
diff -r 38e533287df4 -r b6420d2f247c lib/galaxy/tools/__init__.py
--- a/lib/galaxy/tools/__init__.py Wed Sep 24 11:14:44 2008 -0400
+++ b/lib/galaxy/tools/__init__.py Wed Sep 24 13:52:01 2008 -0400
@@ -1185,6 +1185,7 @@
primary_data.info = dataset.info
primary_data.state = primary_data.states.OK
primary_data.init_meta( copy_from=dataset )
+ primary_data.set_meta()
primary_data.set_peek()
primary_data.set_size()
primary_data.flush()
@@ -1245,6 +1246,8 @@
def __getattr__( self, name ):
rval = self.metadata.get( name, None )
if name in self.metadata.spec:
+ if rval is None:
+ rval = self.metadata.spec[name].no_value
rval = self.metadata.spec[name].wrap( rval, self.metadata.parent )
return rval
def __nonzero__( self ):
1
0
[hg] galaxy 1529: Adding tools to fetch microsatellites and esti...
by gregï¼ scofield.bx.psu.edu 24 Sep '08
by gregï¼ scofield.bx.psu.edu 24 Sep '08
24 Sep '08
details: http://www.bx.psu.edu/hg/galaxy/rev/ad3f61801a82
changeset: 1529:ad3f61801a82
user: guru
date: Wed Sep 24 18:20:39 2008 -0400
description:
Adding tools to fetch microsatellites and estimate their mutabilities.
9 file(s) affected in this change:
test-data/2way.maf
test-data/ortho_ms.tab
test-data/ortho_ms_mut.tab
tool_conf.xml.sample
tools/regVariation/getIndelRates_3way.xml
tools/regVariation/microsats_alignment_level.py
tools/regVariation/microsats_alignment_level.xml
tools/regVariation/microsats_mutability.py
tools/regVariation/microsats_mutability.xml
diffs (1641 lines):
diff -r 447c74d98fe5 -r ad3f61801a82 test-data/2way.maf
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2way.maf Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,401 @@
+##maf version=1
+a score=51988
+s hg18.chr1 464 785 + 247249719 ccctcgcggtaccctcagccggcccgcccgcccgggtctgacctgaggagaactgtgctccgccttcagagtaccaccgaaatctgtgcagaggacaacgcagctccgccctcgcggtgctctccgggtctgtgctgaggagaacgcaactccgccggcgcaggcgcagagaggcgcgccgcgccggcgcaggcgcagacacatgctagcgcgtcggggtggaggcgtggcgcaggcgcagagaggcgcgccgcgccggcgcaggcgcagagacacatgctaccgcgtccaggggtggaggcgtggcgcaggcgcagagaggcgcaccgcgccggcgcaggcgcagagacacatgctagcgcgtccaggggtggaggcgtggcgcaggcgcagagacgcaagcctacgggcgggggttgggggggcgtgtgttgcaggagcaaagtcgcacggcgccgggctggggcggggggagggtggcgccgtgcacgcgcagaaactcacgtcacggtggcgcggcgcagagacgggtagaacctcagtaatccgaaaagccgggatcgaccgccccttgcttgcagccgggcactacaggacccgcttgctcacggtgctgtgccagggcgccccctgctggcgactagggcaactgcagggctctcttgcttagagtggtggccagcgccccctgctggcgccggggcactgcagggccctcttgcttactgtatagtggtggcacgccgcctgctggcagctagggacattgcagggtcctcttgctc
+s panTro2.chr15 13361 700 - 100063422 ccctcgcagtaccctcagcccgcccgcccgcccgggtctgacctgaggagaactctgctccgccttcgcagtaccaccgaaatctgtgcagaggagaactcagctccaccctcgcggtgctctccgggtctgtgctgaggagaacgcaactccgccgtcgtaaacgc----------gccgcgccggcgcacgcgcaga----------------------gaggcg------------------gcgcgccgcgccggcgcacgcgcagagacacatgctagcgcgtctcgggg---------------------gagaggcgcaccgcgccggcgcag------agacacatactagcgcgtcctgggg-ggaggtgcggcgctgtcgccgagac-cacgcctatgggcgggggttgcgggg-cgcgtggtgcaggagcaaagtcgcacggagcctgtctgggg-----gcaggtgggctccgtgcaggcgcagaaacgcacgtcgcggcggcgcggcgcagagacgggtggaacctcagtaatcagaaaagccgggctggaccgccccctgcttgcagccgggcactacaggacccgcttgctcacggtgctctgccagtgcgccccctgctggcaactagggcaactgcagggctctcttgcttagagtggtggccagcgggggctgctggctccggggcactgcagggccctcttgcttactgtatagtggtggcacgccgcctgctggcagctagggacattgcagggtcctcttgctc
+
+a score=5767
+s hg18.chr1 1249 62 + 247249719 aaggtgtagtggcagcacgcccacctgctggcagctggggacactgccgggccctcttgctC
+s panTro2.chr9_random 4665776 62 + 7733331 aaagtgtagtggcagcacgcccgcctgctggcagctggggacactgccgggccctcttgctc
+
+a score=108196
+s hg18.chr1 1311 1227 + 247249719 CAACAGTACTGGCGG-ATTATAGGGAAACACCCGGAGcatatgctgtttggtctcagtagactcctaaatatgggattcctgggtttaaaagtaaaaaataaatatgtttaatttgtgaactgattaccatcagaattgtactgttctgtatcccaccagcaatgtctaggaatgcctgtttctccacaaagtgtttacttttggatttttgccagtctaacaggtgaAGccctggagattcttattagtgatttgggctggggcctggccatgtgtatttttttaaatttccactgatgattttgctgcatggccggtgttgagaatgactgCGCAAATTTGCCGGATTTCCTTTGCTGTTCCTGCATGTAGTTTAAACGAGATTGCCAGCACCGGGTATCATTCACCATTTTTCTTTTCGTTAACTTGCCGTCAGCCTTTTCTTTGACCTCTTCTTTCTGTTCATGTGTATTTGCTGTCTCTTAGCCCAGACTTCCCGTGTCCTTTCCACCGGGCCTTTGAGAGGTCACAGGGTCTTGATGCTGTGGTCTTCATCTGCAGGTGTCTGACTTCCAGCAACTGCTGGCCTGTGCCAGGGTGCAAGCTGAGCACTGGAGTGGAGTTTTCCTGTGGAGAGGAGCCATGCCTAGAGTGGGATGGGCCATTGTTCATCTTCTGGCCCCTGTTGTCTGCATGTAACTTAATACCACAACCAGGCATAGGGGAAAGATTGGAGGAAAGAT------------GAGTGAGAGCATCAACTTCTCTCACAACCTAGGCCAGTAAGTAGTGCTTGTGCTCATCTCCTTGGCTGTGATACGTGGCCGGCCCTCGCTCCAGCAGCTGGACCCCTACCTGCCGTCTGCTGCCATCGGAGCCCAAAGCCGGGCTGTGACTGCTCAGACCAGCCGGCTGGAGGGAGGGGCTCAGCAGGTCTGGC
TTTGGCCCTGGGAGAGCAGGTGGAAGATCAGGCAGGCCATCGCTGCCACAGAACCCAGTGGATTGGCCTAGGTGGGATCTCTGAGCTCAACAAGCCCTCTCTGGGTGGTAGGTGCAGAGACGGGAGGGGCAGAGCCGCAGGCACAGCCAAGAGGGCTGAAGAAATGGTAGAACGGAGCAGCTGGTGATGTGTGGGCCCACCGGCCCCAGGCTCCTGTCTCCCCCCAGGTGTGTGGTGATGCCAGGCATGCCCTTCCCCAGCATCAGGTCTCCAGAGCTGCAGAAGACGAC
+s panTro2.chr15 14061 1233 - 100063422 caacagtagtggcggGATTATGGGGAAACACCCGGAGCATATGCTGTTTGGTCTCAgtaggctcctaaatatgggattcctggatttaaaagtataaaataaatatgtttaatttgttaactgattaccatcagaattgtactgttctgtaccccaccagcaatgtctaggaatgcctgtttctccacaaagtgtttacttttggatttttgccagtctaacaggtgaAGccctggagattcttattagtgatttgggctggggcctggccatgtgtatttttttaaatttccactgatgattttgctgcatggccggtgttgagaatgactgTGCAAATTTGCCGGATTTCCTTTGCTGTTCCTGCATGTCGTTTAAACGACATTGCCAGCACCGGGTATCGTTCACCATTTTTCTTTTT-----CTTGCCGTCAGCCTTTTCTTTGACCTCTTCTCTCTGTTCATGTGTATTTGCTGTCTCTTAGCCCAGACTTCCCGTGTCCTTTCCACCGGGCCTTTGGGAGGTCACAGGGTCTTGATGCTGTGGTCTTGGTCTGCAGGTGTCTGACTTTCAGCAACTGCTGGCCTGTGCCAGGGTGGAAGCTGAGCACTGGAGTGGAGTTTTCCTGTGGAGAGGAGCCATGCCTAGAGTGGGATGGGCCATTGTTCATATTCTGGCCCCTGTTGTCTGCATGTAACCTAATACCACAACCAGGCATGGGGGAAAGACTGGAGGAAAGATTGGAGAAAAGATGAGTGAGAGGATCAACTTCTCTGACAGCCTAGGCCAGTAAGTAGTGCTTCTGCTCATCTCCTTGGCTGTGATACGTGGCCGGCCCTCGCTCCAGCAGCTGGACCCCTACCTGCCGTCTGCTGCCATCGGAGCCCAAATCCGGGCTGTGACTGCTCAGACCAGCCGGCTGGAGGGAGGGGCTCAGCAGCTCTGGC
TTTGGCCTTGGGATAGCAGGTGGAAGATCAGGCAGGCCATCGCTGCCGCAGAACCCAGTGAATTGGCCTAGGTGGGATCTCTGAGCTGAACAAGCCCTCTCCGGGTGGTAGGTGCAGAGAGGGGAGGGGCAGAGCCGCAGGCACAGCCAAGAGGGCTGAGGAAATGGTAGAACGGAGCAGCTGGTGATGTCTGGGCCCACCGGCCCCAGGCTCCTGTCTCCCCCCAG--GTGTGGTGATGCCAGGCATGCCCTTCCTCAGCATCAGGTCTCCAGAGCTGCAGAAGACGAC
+
+a score=179761
+s hg18.chr1 2538 2022 + 247249719 GGCCGACTTGGATCACACTCTTGTGAGTGTCCCCAGTGTTGCAGAGGTG-AGAGGAGAGTAG-ACAGTGAGTGGGAGTGG-CGTCGCCCCTAGGGCTCTACGGGGCCGGCGTCTCCTGTCTCCTGGAGAGGCTTCGATGCCCCTCCACACCCTCTTGATCTTCCCTGTGATGTCATCTGGAGCCCTGCTGCTTGCGGTGGCCTATAAAGCCTCCTAGTCTGGCTCCAAGGCCTGGCAGAGTCTTTCCCAGGGAAAGCTACAAGCAGCAAACAGTCTGCATGGGTCATCCCCTTCACTCCCAGCTCAGAGCCCAGGCCAGGGGCCCCCAAGAAAGGCTCTGGTGGAGAACCTGTGCATGAAGGCTGTCAACCAGTCCATAGGCAAGCCTGGCTGCCTCCAGCTGGGTCGACAGACAGGGGCTGGAGAAGGGGAGAAGAGGAAAGTGAGGTTGCCTGCCCTGTCTCCTACCTGAGGCTGAGGAAGGAGAAGGGGATGCACTGTTGGGGAGGCAGCTGTAACTCAAAGCCTTAGCCTCTGTTCCCACGAAGGCAGGGCCATCAGGCACCAAAGGGATTCTGCCAGCATAGTGCTCCTGGACCAGTGATACACCCGGCACCCTGTCCTGGACACGCTGTTGGCCTGGATCTGAGCCCTGGTGGAGGTCAAAGCCACCTTTGGTTCTGCCATTGCTGCTGTGTGGAAGTTCACTCCTGCCTTTTCCTTTCCCTAGAGCCTCCACCACCCCGAGATCACATTTCTCACTGCCTTTTGTCTGCCCAGTTTCACCAGAAGTAGGCCTCTTCCTGACAGGCAGCTGCACCACTGCCTGGCGCTGTGCCCTTCCTTTGCTCTGCCCGCTGGAGACGGTGTTTGTCATGGGCCTGGTCTGCAGGGATCCTGCTACAAAGGTGAAACCCAGGAGAGTGTGGAGTCCAGAGTGTTGCCAGGAC
CCAGGCACAGGCATTAGTGCCCGTTGGAGAAAACAGGGGAATCCCGAAGAAATGGTGGGTCCTGGCCATCCGTGAGATCTTCCCAGGGCAGCTCCCCTCTGTGGAATCCAATCTGTCTTCCATCCTGCGTGGCCGAGGGCCAGGCTTCTCACTGGGCCTCTGCAGGAGGCTGCCATT--TGTCCTGCCCACCTTCTTAGAAGCGAGACGGAGCAGACCCATCTGCTACTGCCCTTTCTATAATAACTAAAGTTAGCTGCCCTGGACTATTCACCCCCTAGTCTCAATTTAAGAAGATCCCCATGGCCACAGGGCCCCTGCCTGGGGGCTTGTCACCTCCCCCACCTTCTTCCTGAGTCATTCCTGCAGCCTTGCTCCCTAACCTGCCCCACAGCCTTGCCTGGATTTCTATCTCCCTGGCTTGGTGCCAGTTCCTCCAAGTCGATGGCACCTCCCTCCCTCTCAACCACTTGAGCAAACTCCAAGACATCTTCTACCCCAACACCAGCAATTGTGCCAAGGGCCATTAGGCTCTCAGCATGACTATTTTTAGAGACCCCGTGTCTGTCACTGAAACCTTTTTTGTGGGAGACTATTCCTCCCATCTGCAACAGCTGCCCCTGCTGACTGCCCTTCTCTCCTCCCTCTCATCCCAGAGAAACAGGTCAGCTGGGAGCTTCTGCCCCCACTGCCTAGGGACCAACAGGGGCAGGAGGCAGTCACTGACCCCGAGACGTTTGCATCCTGCACAGCTAGAGATCCTTTATTAAAAGCACACTGTTGGTTTCTGCTCAGTTCTTTATTGATTGGTGTGCCGTTTTCTCTGGAAGCCTCTT-----AAGAACACAGTGGCGCAGGCTGGGTGGAGCCGTCCCCCCATGGAGCACAGGCAGACAGAAGTCCCCGCCCCAGCTGTGTGGCCTCAAGCCAGCCTTCCGCTCCTTGAAGCTGGTCTCCACACAGTGCTGGTTCCGTCACCCCCTCCCAA
GGAAGTAGGTCTGAGCAGCTTGTCCTGGCTGTGTCCATGTCAGAGCAACGGCCCAAGTCTGGGTCTGGGGGGGAAGGTGTCATGGAGCCCCCT
+s panTro2.chr15 15769 2032 - 100063422 GGCCAACTTGGATCACACTCTAATGAGTGTCCCCAGTATTGCAGTGGTGCAGAGGAGAGTAGTACGGTGAGTGGGAGTGGTCGTCTCCCCTAGGGATGTGCTGGGCGGGGGTCTCCTGTCTCGTGGGGAGGCTTGGATGCCCCTCCACACCCTCTTGATGTTCCCTGTGATGTCATCTGGAGCCCTGGTGCTTGCGGTGGCCTATGAAGCTTCCCGGTCTGGCTCCAAGGCCTGGCAGAGTCTTTCCCAGGGAAAGCTACAAGCAGGAAACAGTCCGCATGGGTCATCCCCTTCACTCCCAGCTCTGAGCCCAGGCCAGGGGCCCCCAAGAAAGGCTCTGGTGGAGAACCTGTGCATGAAGGCTGTCAACCAGTCCATAGGCAAGCCTGGCTGCCTCCAGCTGGGTGGACAGACAGGCGCTGGAGAAGGGGAGAAGAGGAAAGGGGGGCTGCCTGCCCTGTCTCCCACCTGAGGCTGAGGAAGGAGAGGGGGATGCACTGTTGGGGAGGCAGCTGTAACTCAAAGCCCTAGCCTCTGTTCCCACGAAGGCAGGGCCATCAGGCACCAAAGGGATTCTGCCAGCATAATGCTCCTGGACCAGTGATACACCCGGCACCCTGTCCTGGACAAGCTGTTGGCCTGGATCTGAGCCCTCGTGGAGCTCAAAGCCACCTTTGGTTCTGCCATTGCTGCTGTGTGGAAGTTCAGTCCTGCCTTTTCCTTTCCCGAGAGGCTCCACCACCCCGAGATCGCACTTCTCACTGCCTTTTGTCTGCCCAGTTTCACCAGAAGTAGGCCTCTTCCTGACAGGCAGCTGCACCACTGCCTGGCGCTGCGCCCTTCCTTTGCTCTGCCCGCTGGAGACGGTGTTTGTCATGGGCCTGGTCTGCAGGGATCCTGCTACAAAGGTGAAACCCAGGAGAGTGTGGAGTCCAGAGTGTTGCCAGGAC
CCAGGCACAGGCATTAGTGCCCGTTGGAGAAAACAGGGGAATCCCAAAGAAATGGTGAGTCCTGGCCATCCGTGAGATCTTCCCAGGGCAGCTCCCCTCTGTGGAATCCAATCTGTCTTCCATCCTGCGTGGCAGAGGGCCAGGCTTCTCACTGGGCCTCTGCAGGAGGCTGCCATTTCTGTCCTGCCCACCTTCTAAGAAGCGAGACGGAGGACACCCATCTGCTTCTGCCCTTTCCATAATAACTAAAGTTAGCTGCCCTGGACTATTCACCCCCTAGTCTCTATTTAAAAAGATCCCCATGGCCACAGGGCCCCTGCCTGGGGGCTTGTCACCTCCCCCACCTTCTTCCTGAGTCACTTCTGCAGCCTTGCTCCCTAACCTGCCCCACAGCCTTGCCTGGATTTCTATCTCCCTGGCTTGGTGCCAGTTCCTCCAAGTCGATGGCACCTCCCTCCCTCTCAACTACTTGAGCAAACTTGAAGACATCTTCAACCCCAACACCAGCAATTGTGCCAAGGGCCATTAGGCTCTCAGCATGACTATTTTTAGAGACCCCGTGTCTGTCACTGAAACCTTTTTCGTGGGAGACTATTCCTCCCATCTGCAACAGCTGCCCCTGCTGACTGCCCTTCTCTCCTCCCTCTCATCCCAGAGAAACAGGTCAGCTGGGAGCTTCTGCCCCCACTGCCTAGGCACCAACAGGGGCAGGAGGCAGTCACTGACCCCGAGACGTTTGCATCCTGCACAGCTAGAGGTCCTTAATTAAAAGCACACTGTTGGTTTCTGCTCAGTTCTTTATTGATTGGTGTGCCATTTTCTCTGGAAGCCTCTTTAGAGAAGAACACACTGGTGCAGGCTGGCTGGAGCTGTCCCCCCATGGAGCACAGGCAGACAGAAGTCCCCGCCCCAGCTGTGTGGCCTCAAGCCAGCCTTCCGCTCCTTGAAGCTGGTCTCCACACAGTGCTGGTTCCGTCACCCCCTCCCAG
GGAAGCAGGTCTCAGCAGCTTGTCCTGGCTGTGTCCGTGTCAGAGCAACGGCCCAAGTCTGGGTCTGGGGGGGAAGGTGTCATGGAGCCCCCT
+
+a score=433563
+s hg18.chr1 4560 4714 + 247249719 ACGATTCCCAGTCGTCCTCGTCCTCCTCTGCCTGTGGCTGCTGCGGTGGCGGCAGAGGAGGGATGGAGTCTGACACGCGGGCAAAGGCTCCTCCGGGCCCCTCACCAGCCCCAGGTCCTTTCCCAGAGATGCCTGGAGGGAAAAGGCTGAGTGAGGGTGGTTGGTGGGAAACCCTGGTTCCCCCAGCCCCCGGAGACTTAAATACAGGAAGAAAAAGGCAGGACAGAATTACAAGGTGCTGGCCCAGGGCGGGCAGCGGCCCTGCCTCCTACCCTTGCGCCTCATGACCAGCTTGTTGAAGAGATCCGACATCAAGTGCCCACCTTGGCTCGTGGCTCTCACTGCAACGGGAAAGCCACAGACTGGGGTGAAGAGTTCAGTCACATGCGACCGGTGACTCCCTGTCCCCACCCCCATGACACTCCCCAGCCCTCCAAGGCCACTGTGTTTCCCAGTTAGCTCAGAGCCTCAGTCGATCCCTGACCCAGCACCGGGCACTGATGAGACAGCGGCTGTTTGAGGAGCCACCTCCCAGCCACCTCGGGGCCAGGGCCAGGGTGTGCAGCAccactgtacaatggggaaactggcccagagaggtgaggcagcttgcctggggtcacagagcaaggcaaaagcagcgctgggtacaagctcaAAACCATAGTGCCCAGGGCACTGCCGCTGCAGGCGCAGGCATCGCATCACA-----CCAGTGTCTGCGTTCACAGCAGGCATCATCAGTAGCCTCCAGAGGCCTCAGGTCCAGTCTCTAAAAATATCTCAGGAGGCTGCAGTGGCTGACCATTGCCTTGGACCGCTCTTGGCAGTCGAAGAAGATTCTCCTGTCA--GTTTGAGCTGGGTGAGCTTAGAGAGGAAAGCTCCACTATGGCTCCCAAACCAGGAAGGAGCCATAGCCCAGGCAGGAGGGCTGAGGACCTCTGGT
GGCGGCCCAGGGCTTCCAGCATGTGCCCTAGGGGAAGCAGGGGCCAGCTGGCAAGAGCAGGGGGTGGGCAGAAAGCACCCGGTGGACTCAGGGCTGGAGGGGAGGAGGCGATCTTGCCCAAGGCCCTCCGACTGCAAGCTCCAGGGCCCGCTCACCTTGCTCCTGCTCCTTCTGCTGCTGCTTCTCCAGCTTTCGCTCCTTCATGCTGCGCAGCTTGGCCTTGCCGATGCCCCCAGCTTGGCGGATGGACTCTAGCAGAGTGGCC-AGCCACCGGAGGGGTCAACCACTTCCCTGGGAGCTCCCTGGACTGGAGCCGGGAGGTGGGGAACAGGGCAAGGAGGAAAGGCTGCTCAGGCAGGGCTGGGGAAGCTTACTGTGTCCAAGAGCCTGCTGGGAGGGAAGTCACCTCCCCTCAAACGAGGAGCCCTGCGCTGGGGAGGCCGGACCTTTGGAGACTGTGTGTGGGGGCCTGGGCACTGACTTCTGCAACCACCTGAGCGCGGGCATCCTGTGTGCAGATACTCCCTGCTTCCTCTCTAGCCCCCACCCTGCAGAGCTGGACCCCTGAGCTAGCCATGCTCTGACAGTCTCAGTTGCACACACGAGCCAGCAGAGGGGTTTTGTGCCACTTCTGGATGCTAGGGTTACACTGGGAGACACAGCAGTGAAGCTGAAATGAAAAATGTGTTGCTGTAGTTT-----GTTATTAGACCCCTTCTTTCCATTGGTTTAATTAGGAATGGGGAACCCAGAGCCTCACTTGTTCAGGCTCCCTCTGCCCTAGAAGTGAGAAGTCCAGAGCTCTACAGTTTGAAAACCACTATTTTATGAACCAAGTAGAACAAGATATTTGAAATGGAAACTATTCAAAAAATTGAGAATTTCTGACCACTTAACAAACCCACAGAAAATCCACCCGAGTGCACTGAGCACGCCAGAAATCAGGTGGCCTCAAAGAGCTGCTCCCACCTGAAGGAGACGCGCTG
CTGCTGCTGTCGTCCTGCCTGGCGCCTTGGCCTACAGGGGCCGCGGTTGAGGGTGGGAGTGGGGGTGCACTGGCCAGCACCTCAGGAGCtgggggtggtggtgggggcggtgggggtggtg---------ttagtACCCCATCTTGTAGGTCTGAAACACAAAGTGTGGGGTGTCTAGGGAAGAAGGTGTGTGACCAGGGAGGTCCCCGGCCCAGCTCCCATCCCAGAACCCAGCTCACCTACCTTGAGAGGCTCGGCTACCTCAGTGTGGAAGGTGGGCAGTTCTGGAATGGTGCCAGGGGCAGAGGGGGCAATGCCGGGGCCCAGGTCGGCAATGTACATGAGGTCGTTGGCAATGCCGGGCAGGTCAGGCAGGTAGGATGGAACATCAATCTCAGGCACCTGGCCCAGGTCTGGCACATAGAAGTAGTTCTCTGGGACCTGCAAGATTAGGCAGGGACATGTGAGAGGTGACAGGGACCTGCAGGGGCAGCCAACAAGACCTTGTGTGCACCTCCCATGGGTGGAATAAGGGGCCCAACAGCCTTGACTGGAGAGGAGCTCTGGCAAGGCCCTGGGCCACTGCACCTGTCTCCACCTCTGTCCCACCCCTCCCACCTGCTGTTCCAGCTGCTCTCTCTTGCTGATGGACAAGGGGGCATCAAACAGCTTCTCCTCTGTCTCTGCCCCCAGCATCACATGGGTCTTTGTTACAGCACCAGCCAGGGGGTCCAGGAAGACATACTTCTTCTACCTACAGAGGCGACATGGGGGTCAGGCAAGCTGACACCCGCTGTCCTGAGCCCATGTTCCTCTCCCACATCATCAGGGGCACAGCGTGCACTGTGGGGTCCCAGGCCTCCCGAGCCGAGCCACCCGTCACCCCCTGGCTCCTGGCCTATGTGCTGTACCTGTGTCTGATGCCCTGGGTCCCCACTAAGCCAGGCCGGGCCTCCCGCCCACACCCCTCGGCCCTGCCCTCTGGCCAT
ACAGGTTCTCGGTGGTGTTGAAGAGCAGCAAGGAGCTGACAGAGCTGATGTTGCTGGGAAGACCCCCAAGTCCCTCTTCTGCATCGTCCTCGGGCTCCGGCTTGGTGCTCACGCACACAGGAAAGTCCTTCAGCTTCTCCTGAGAGGGCCAGGATGGCCAAGGGATGGTGAATATTTGGTGCTGGGCCTAATCAGCTGCCATCCCATCCCAGTCAGCCTCCTCTGGGGGACAGAACCCTATGGTGGCCCCGGCTCCTCCCCAGTATCCAGTCCTCCTGGTGTGTGACAGGC-----TATATGCGCGGCCAGCAGACCTGCAGGGCCCGCTCGTCCAGGGGGCGGTGCTTGCTCTGGATCCTGTGGCGGGGGCGTCTCTGCAGGCCAGGGTCCTGGGCGCCCGTGAAGATGGAGCCATATTCCTGCAGGCGCCCTGGAGCAGGGTACTTGGCACTGGAGAACACCTGTGGACACAGGGACAAGTCTGAGGGGGCCCCAAGAGGCTCAGAGGGCTAGGATTGCTTGGCAGGAGAGGGTGGAGTTGGAAGCCTGGGCGAGAAGAAAGCTCAAGGTACAGGTGGGCAGCAGGGCAGAGACTGGGCAGCCTCAGAGGCACGGGGAAATGGAGGGACTGCCCAGTAGCCTCAGGACACAGGGGTATGGGGACTACCTTGATGGCCTTCTTGCTGCCCTTGATCTTCTCAATCTTGGCCTGGGCCAAGGAGACCTTCTCTCCAATGGCCTGCACCTGGCTCCGGCTCTGCTCTACCTGCTGGGAGATCCTGCCATGGAGAAGATCACAGAGGCTGGGCTGCTCCCCACCCTCTGCACACCTCCTGCTTCTAACAGCAGAGCTGCCAGGCCAGGCCCTCAGGCAAGGGCTCTGAAGTCAGGGTCACCTACTTGCCAGGGCCGATCTTGGTGCCATCCAGGGGGCCTCTACAAGGATAATCTGACCTGCAGGGTCGAGGAGTTGACGGTGCTGAGTTC
CCTGCACTCTCAGTAGGGACAGGCCCTATGCTGCCACCTGTACATGCTATCTGAAGGACAGCCTCCAGGGCACACAGAGGATGGTATTTACACATGCACACATGGCTACTGATGGGGCAAGCACTTCACAACCCCTCATGATCACGTGCAGCAGACAATGTGGCCTCTGCAGAGGGGGAACGGAGACCGGAGGCTGAGACTGGCAAGGCTGGACCTGAGTGTCGTCACCTAAATTCAGACGGGGAACTGCCCCTGCACATACTGAACGGCTCACTGAGCAAACCCCGAGTCCCGACCACCGCCTCAGTGTGGTCTAGCTcctcacctgcttccatcctccctggtgcggggtgggcccagtgatatcagctgcctgctgttccccagatgtgccaagtgcattcttgtgtgcttgcatctcatggaacgccatttccccagacatccctgtggctggctcctGATGCCCGAGGCCCAAGTGTCTGATGCTTTAAGGCACATCACCCCACTCATGCTTTTCCATGTTCTTTGGCCGCAGCAAGGCCGCTCTCACTGCAAAGTTAACTCTGATGCGTGTGTAACACAACATCCTCCTCCCAGTCGCCCCTGTAGCTCCCCTACCTCCAAGAGCCCAGCCCTTGCCCACAGGGCCACACTCCACGTGCAGAGCAGCCTCAGCACTCACCGGGCACGAGCGAGCCTGTGTGGTGCGCAGGGATGAGAAGGCAGAGGCGCGACTGGGGTTCATGAGGAAGGGCAGGAGGAGGGTGTGGGATGGTGGAGGGGTTTGAGAAGGCAGAGGCGCGACTGGGGTTCATGAGGAA
+s panTro2.chr15 18045 4735 - 100063422 AGGATTCCCAGTCGTCCTCATCCTCCTCTGCCTGTGGCTGCTGCGGTGGCGGCAGAGGAGGGATGGAGTCTGACACGCGGGCAAAGGCTCCTCCGGGCCCCTCACCAGCCCCAGGTCCTTTCCCAGAGATGCCTGGAGGGAAAAGGCTGAGTGAGGGTGGTTGGTGGGAAACCCTGCTTCCCCCAGCCCCCAGAGACTTAAATACAGGAAGAAAAAGGCAGGACACAATTACAATGTGCCGGCCCAGGGCGGGCAGCGGCCCTGCCTCCTACCCTTGCGCCTCATGACCAGCTTGTTGAAGAGATCCGACATCAAGTCCCCACCTTGGCTCGTGGCTCTCACTGCAACGGGAAAGCCACAGACTGGGGTGAAGAGTTCAGTCACATGTGACCGGTGGCTCCCTGTCCCCAGCCCCATGACACTCCCCAGCCCTCCAAGGCCACTGTGTTTCCCAGTTAGCTCAGAGCCTCAGTCGATCCCTGACCCAGCACCGGGCGCTGATGAGAAAGCGGCTGTTTGAGGAGCCACCTCCCAGCCACCTTGGGGACAGGGCCAGGGTGTGCAGCACcactgtacaatggggaaactggcccagagaggtgaggcagcttgcctggggtcacagagcaaggcaaaagcagcgctgTGTACAAGCTCAAAACCATAGTGCCCAGGGCATTGCCACTGCAGGCGCAGGCATCGCATCACATCACACCAGTGTCTGCGTTCACAGCAGGCATCATCAGTAGCCTCAAGAGGCCTCAGGTCCAGTCTCTAAAAATATCTCAGGAGGCTGCAGTGGCTGACCATTGCCTTGGACCGCTCTTGGCAGTCGAAGAAGATTCTCCTGTCACAGTTTGAGCTGGGTGAGCTTAGAGAGGAAAGCTCCACTATGGCTCCCAAACCAGGAAGGAGCCATAGCCCAGGCAGGAGGGCTGAGGACCTCTGGT
GGCGGCCCAGGGATTCCAGCATGTGCCCTAGGAGAAGCAGGGGCCAGCTGCCAAGAGCAGGGGGTGGGCAGAAAGCACCCAGTGGACTCAGGGCTGGAGGGAAGGAGGCGATCTTGCCCAAGGCCCTCCGACCGCAGGCTCCAGGGCCCGCtcaccttgctcctgctccttctgcttcttcttctccagctttcgctccttcACGCTGCGCAGCTTGGCCTTGCCGATGCCCCCAGCTTGGCGGATGGATTCTAGCAGAGTGGCCCGGCCACCGGAGGGGTCGACCACTTCCCTGGGAGCTCCCTGGACTGGAGCCGGGAGGTGGGGAACAGGGCAAGGAGGAAAGGCTGCTCAGGCAGGGCTGGGGAAGCTTATTGTATCCAAGAGCCTGCTGGGAGGGAAGTCACCTCCCCTCAAACGAGGAGCCCCGCGCTGGGGAGGCCGGACCTTTGGAGACTGTGTG---GGGCCTGGGCACTGACTTCGGCAACCACCTGAGTGCAGGCATCCTGTGTGCAGATACTCCCTGCTTCCTCTCTAGCCCCCACCCTGCAGAGCTGGACCCCTGAGCTAGCCATGCTCTGACAGTCTCAGTGGCACACATGAGCCAGCAGAGGGGTTTTGTGCCACTTCTGGATGCTAGGGTTAGACTGGGAGATACAACAGTGAAGCTGAGAAGAAAAATGTGTTGCTGTAGTTTAGTTGGTTATTAGACCCCTTCTTTCCATTGGTTTAATTAGGAATGGGGAACCCAGAGCCTCACTTGTTCAGGCTCCCTCTGCCCTAGAAGTGAGAAGTCCAGAGCTCTACAGTTTGAAAACCACTATTTTATGAACCAAGTAGAACAAGATATTTGAAATGGGAACTATTCAAAAAATTGAGAATTTCTGACCACTTAACAAACCCACAGAAAATACACCCGAGTGCACTGAGCACGCCAGAAATGAGGTGGCCTCAAAGAGCTGCTCCCACCTGAAGGAGACGCGCTG
CTGCTGCTGTCGTCCTGCCTGGCGCCTTGGCCTACAGGGGCCGCGGTTGAGGGTGGGAGTGGGGGTGCACTGGCCAGCACCTCAGGAGCtgggggaggtggtgggggcggtgggggtggtgggggtgctgttagtACCCCATCTTGTAGGTCTGAAACACAAAGTGTGGGGTGTCTAGGGAAGAAGGTGTGTGAGCAGGGAGGTCCCCAGCCCAGCTCCCATCCCAGAGCCCAGCTCACCTGCCTTGAGAGGCTCGGCTACCTCAGTGTGGAAGGTGGGCAGTTCTGGAATGGTGCCAGGGGCAGAGGGGGCAATGCCGGGGCCCAGGTCGGCACTGTACATGAGGTCGTTGGCAATGCCGGGCAGGTCAGGCAGGTAGGATGGAACATCAATCTCAGGCACCTGGCCCAGGTCTGGCACATAGAAGTAGTTCTCTGGGACCTGCAAGATTAGGCAGGGACATGTGAGAGGTGACAGGGACCTGCAGGGGCAGCCAACAAGACCTTGTGTGCACCTCCCATGGGTGGAATAAGGGGCTCAACAGCCTGGACTGGAGAGGAGCTCTGGCAAGGCCCTGGGCCACTGCACCTGTCTCCACCTCTGTCCCGCCCCTCCCACCTGCTGTTCCAGCTGCTCTCTCTTGCTGATGGACAAGGGGGCATCAAACAGCTTCTCCTCTGTCTCTGCCCCCAGCATCACATGGGTCTTTGTTACAGCACCAGCCAGGGGGTCCAGGAAGACATACTTCTTGTACCTACAGGGGCGACATGGGGGTCAGGCAAGCTGACACCTGCTGTCCTGAGCCCATGTTCCTCTCCCACATCATCAGGGGCACAGTGTGCACCGTGGGGTCCCAGGCCTCCCGAGCCGAGCCACCCGTCACCCCCTGGCTCCTGGCCTATGTGCTGTACCTGTGTCTGATGCCCTGGGTCCCCACTAAGCCAGGCCGGGCCTCCCGCCCACACCCCTCGGCCCTGCCTTCTGGCCAT
ACAGGTTCTCGGTGGTGTTGAAGAGCAGCAAGGAGCTGACAGAGCTGATGTTGCTGGGAAGACCCCCAAGTCCCTCTTCTGCATCGTCCTCGGGCCCCGGCTTGGTGCTCACGCACACAGGAAAGTACTTCAGCTTCTCCTGGGAGGGCCAGAATGGCCAAGGGATGGTGAATATTTAGTGCCGGGCCTAATCAGCTGCCACCCCATCCCGGTCAGCCTCCTCTGGGGGACAGAACCCT-TGGTGGCCCCGGCTCCTCCCCAGTATCCAGTCCTCCTGGTGTGTGACAGGCTAAGTTATGTGCGCGGCCAGCAGACCTGCAGGGCCCGCTCATCCAGGGGGCGGTGCTTGCTCTGGATCCTGTGGCGGGGGCGTCTCTGCAGGCCAGGGTCCTGGGCGCCCGTGAAGATGGAGCCATATTCCTGCAGGCGCTCTGGAGCAGGGTACTTGGCACTGGAGAACACCTGTGGACACAGGGACAAGTCTGAGGGGGCCCCAAGAGGCTCAGAGGGCTAGGATTGCTTGGCAGGAGAGGGTGGAGTTGGGAGCCTGGGCGAGAAGAAAGCCCAAGGTAGAGGTGGGCAGCAGGGCAGAGACTGGGCAGCCTCAGAGGCACGGGGAAATGGAGGGACTGCCCAGTAGCCTCAGGACACAGGGGCATGGGGACTACCTTGATGGCCTTCTTGCTGCCCTTGATCTTCTCAATCTTGGCCTGGGCCAAGGAGACCTTCTCTCCAATGGCCTGCACCTGGCTCCGGCTCTGCTCTACCCGCTGGGAGATCCTGCCATGGAGAAGATCACAGAGGCTGGGCTGCTCCCCACCCCCTGCACACCTCCTGCTCCTAACAGCAGAGCTGCCAGGCCAGGCCCTCAGGCAAGGGCTCTTAAGTCAGGGTCACCTGCTTGCCAGGGCTGATCTTGGTGCCATCCAGGGGGCCTCTACAAGGATAATCTGACCTGCAGGGTCGAGGAGTTGATGGTACTGAGTTC
CCTGCACTCTCAGTAGGGACAGGCCCTATGCTGCCACCTGTACATGCTATCTGAAGGACAGCCTCCAGGGCACACAGAGGATGGTATTTACACATGCACACATGGCTATTGATGGGGCAAGCATTTCACAACCCCTCATGATCACGTGCAGCAGACAAAGTAGCCTCTGCAGAGGGGGAATGGAGACCGGAGGCTGAGACTGGCAAGGCTGGACCTGAGTGTCATCACCTAAATTCAGACGGGGAACTGCCCCCGCACATAGTGAACGGCTCACTGAGCAAACCCTGAGTCCCAACCACCGCCTCAGTGTGGTCTAGCTcctcacctgcttccatcctccctggtgcggggtgggcccagtgatatcagctgcctgctgttccccagatgtgccaagtgcattcttatgtgcttgcatctcatggaacaccatttccccagacatgcctgtggctggctcctGGTGCCCGAGGCCCAAGTGTCTGATGCTTTAAGGCACATCACCCCACTCATGCTTTTCCATGTTCTTTGGCCGCAGCAAGGCCGCTCTCACTGCAAAGTTAACTCTGATGCGTGTGTA--ACAACATCCTCCTCCCAGTCGCCCCTGTAGCTCCCCTACCTCCAAGAGCCCAGCCCTTGCCCACAGGGCCACACTCCACGTGCAGAGCAGCCTCAGCACTCACCGGGCACGAGCGAGCCTGTGTGGTGCGCAGGGATGAGAAGGCAGAGGCGCGACTGGGGTTCGTGAGGAAAGGCAGGAGGAGGGTGTGGGATGGTGGAGGGGTTTGAGAAGGCAGAGGCGCGACTGGGGTTCATGAGGAA
+
+a score=94959
+s hg18.chr1 9274 1037 + 247249719 AGGGAGGGGGAGGATGTGGGATGGTGGAGGGGCTGCAGACTCTGGGCTAGGGAAAGCTGGGATGTCTCTAAAGGTTGGAATGAATGGCCTAGAATCCGACCCAATAAGCCAAAGCCACTTCCACCAACGTTAGAAGGCCTTGGCCCCCAGAGAGCCAATTTCACAATCCAGAAGTCCCCGTGCCCTAAAGGGTCTGCCCTGATTACTCCTGGCTCCTTGTGTGCAGGGGGCTCAGGCATGGCAGGGCTGGGAGTACCAGCAGGCACTCAAGCGGCTTAAGTGTTCCATGACAGACTGGTATGAAGGTGGCCACAATTCAGAAAGAAAAAAGAAGAGCACCATCTCCTTCCAGTGAGGAAGCGGGACCACCACCCAGCGTGTGCTCCATCTTTTCTGGCTGGGGAGAGGCCTTCATCTGCTGTAAAGGGTCCTCCAGCACAAGCTGTCTTAATTGACCCTAGTTCCCAGGGCAGCCTCGTTCTGCCTTGGGTGCTGACACGACCTTCGGTAGGTGCATAAGCTCTGCATTCGAGGTCcacaggggcagtgggagggaactgagactggggagggacaaaggctgctctgtcctggtgctcccacaaagg--agaagggctgatcactcaaagttgcgaacaccaagctcaacaatgagccctggaaaatttctggaatggattattaaacagagagtctgtaagcacttagaaaaggccgcggtgagtcccaggggccagcactgctcgaaatgtacagcatttctctttgtaacaggattattagcctgctgtgcccggggaaaacatgcagcacagtgcatctcgagtcagcaggattttgacggcttctaacaaaatcttgtagacaagatggagctatgggggttggaggagagaacatataggaaaaatcagagccaaatgaaccacagccccaaagggcacagtt
gaacaatggactgattccagccttgcacggagggatctggcagagtccatccagttcattcaacacctggttagaaaactggggccagc
+s panTro2.chr15 22920 1038 - 100063422 AGGCAGGAGGAGGGTGTGGGATGGTGGAGGGGCTGCAGACTCTGGGCTTGGGAAAGCTGGGGTGTCTCTAAAGGTTGGAATGAATGGCCTAGAATCGGACCCAATAAGCCAAAGCCACTTCCACCAACGTTAGAAGGCCTTGGCCCCCAGAGAGCCAATTTCACAATCCAGGAGTCCCCGTGCCCTAATGGGTCTGCCCTGATTACTCCTGGCTCCTTGTGTGCAGGGGGCTCAGGCATGGCAGGGCTGGGAGTACCAGCAGGCACTCAAGCGGCTTAAGTGTTCCATGACAGACTGGTATGAAGGTGGCCACAATTCAGAAAGAAAAAAGAAGAGCACCATCTCCTTCCAGTGAGGAAGCGGGGCCACCACCCAGCGTGTGCTCCATCTTTTCTGGCTGGGGAGAGGCCTTCATCTGCTGTAAAGGGTCCTCCAGCACAAGCTGTTTTAATTTACCCTAGTTCCCAAGGCAGCCTCATTCTGCCTTGGGTGCTGACACGACCTTCGGTAGGTGCATAAGCTCTGCATTCGAGGTCcacaggggcagtgggagggaactgagactggggagggacaaaggctgctctgtcctggtgctcccacaaaggacagaagggctgatcactcaaagttgcgaacaccaagctcaacaatgagccctggaaaatttctggaatggattattacacagagagtctgtaagcacttagaaaaggccgcggtgagtcccaggggccagcactgctcgaagtgtacagcatttctctttgtaacaggattagtagcttgctgtgcccggggagaacatgcagcacagcgcatctcgagtcagcaggatttcgacggcttctaacaaaatcctgtagacaagatggagctatgggggttggaggagagaacatatagg-aaaatcagagccaaatgaaccacagccccaaagggcacagtt
gaacaatggactgattccagccttgcacggagggatctggcagagtccatccggttcATTCAACACCTGGTTAGAAAACTGGGGCCAGC
+
+a score=34201
+s hg18.chr1 10311 370 + 247249719 acacaggggaagggtaagctggtttcatgatcgaatcaaggctcagacaatttttaaaggccagagggtagactgcaatcaccaagatgaaatttacaaggaacaaatgtgaagcccaacatttaggttttaaaaatcaagcgtataaatacagaaggtggagggaacttgctttagacacagttcaggtgaagaaagacctggaaacttctgttaactataagctcagtaggggctaaaagcatgttaatcggcataaaaaggcaatgagatcttaggGCACACAGCTCCCCGCCCCTCTTCTGCCCTTCATCCTTCTTTCAATCAGCAGGGACCGTGCACTCTCTTGGAGCCACCACAGAAAACAGAG
+s panTro2.chr9_random 4675777 370 + 7733331 acacaggggaagggtaagttggtttcatgatcgaatcaaggctcagacaattttcaaaggccagagggtagactgcaatcacccagatgaaatttacaaggaacaaatgtgaagcccaacatttaggttttaaaaatcaagcgtataaatatagaaggtggagggaacttgttttagacacagttcaggtgaagaaagacctggaaacttctgttaactataagctcagtaggggctaaaagcatgttaatcggcataaaaaggcaatgagatcttaggGCACACAGCTCCCCGCCCCTCTTCTGCCCTTCATCCTTCTTTCAATCAGCAGGGACGGTGCACTCTCTTGGAGCCACCACAGAAAACAGAG
+
+a score=11150
+s hg18.chr1 10770 199 + 247249719 CAGAGCAGGAGGAGAGAGCACAGCCTGCAATGCTAATTTGCCAGGAGCTCACCTGCCTGCGTCACTGGGCACAGACGCCAGTGAGGCCAGAGGCCGGGCTGTGCTGGGGCCTGAG-CCGGGTGGTGGGGAG-------AGAGTCTCTCCCCTGCCC--CTGTCTCTTCCGTGCAGGAGG---------------AGCATGTTTAAGGGGACGGGTTCAAAGCTG
+s panTro2.chr12 77693524 219 - 135371336 CAGAGCAGGAGGAGAGAGCATGGCCAGGAATGCTAATTTGCCAGGAGCTCACCTGCCTGCGTCACAAGGCACAGGTGCCAATGAGGCCAGGGTCCAGTCTG-----GGGCATGAGATGGGGTGGTGGGGAGGAGAGAGACAGTCTCTCCTCTACCCACCTGTCTCTTCTGTGCAGGTGGTTTCCGAGCAGGTGAAGCACATTTAAAGGGGGAGGTTCTAAACTG
+
+a score=30487
+s hg18.chr1 10997 330 + 247249719 ACAACGAAAAGCCCACTAGCTTGTCCAGTGCCACAGGAGGGGCAAGTGGAGGAGGAGAGGTGGCGGTGCTCCCCACTCCACTGCCAGTCGTCACTGGCTCTCCCTTCCCTTCATCCTCGTTCCCTATCTGTCACCATTTCCTGTCGTCGTTTCCTCTGAATGTCTCACCCTGCCCTCCCTGCTTGCAAGTCCCCTGTCTGTAGCCTCACCCCTGTCGTATCCTGACTACAATAACAGCTTCTGGGTGTCCCTGGCATCCACTCTCTCTCCCTTCTTGTCCCTTCCGTGACGGATGCCTGAGGAACCTTCCCCAAACTCTTCTGTCCCATC
+s panTro2.chr9_random 4677170 330 + 7733331 ACAACGAAAAGCCCACTTGCTTGTCCAGTGCCACAGGAGGGGCAAGTGGAGGAGGAGAGGTGGCGGTGCTCCCCACTCCACTGCCAGTCATCACTGGCTCTCCCTTCCCTTCATCCTCGTTCCCTATCTGTCACCATTTCCTGTCGTCGTTTCCTCTGAATGTCTCACCCTGCCCTCCCTGCTTGCAAGTCCCCTGTCTGTAGCCTCACCCCTGTCACATCCTGACTACAATAACAGCTTCTGGGTGTCCCCAGCATCCACTCTCTCTCCCTTCTTGTCCCTTCCGTGATGGATGCTTGAGGAACCTTCCCCAAACTCTTCCGTCCCATC
+
+a score=780471
+s hg18.chr1 11327 8563 + 247249719 CCTGCCCTGCTCAAAATCCAATCACAGCTCCCTAACACGCCTGAATCAACTTGAAGTCCTGTCTTGAGTAATCCGTGGGCCCTAACTCACTCATCCCAACTCTTCACTCACTGCCCTGCCCCACACCCTGCCAGGGAGCCTCCCGTGGCACCGTGGGGACACAAAGGAACCAGGGCAAAGCTCCCTCAGCCCCATTCAAAGAGGCCTGGCCCACAGGCTCACGGAAAGTCAGCCTCTCATGCCCCGAGAGCTGAGTGCAAGGGAGAGGCAGCGCTGTCTGTGCTTCCCATGCAGAAGCACCCCCCTCCCACCCCTGTGCAGGCCGGCCTTCGCGGCAGACCACCATACACCACGTTCCAAGCCACACTGAGGCCTCCCTCCAAGCCTGCAGCCCCCATTTCCAGACCCTGCCAGGGCAACCTGCATATCCACCTCCCTACCCTGCCCCCCTCTTCCAGGAGTCTGCCCTATGTGGAGTAAGCACgtggttttcctcttcagcaactatttcctttttactcaagcaatggccccatttcccttggggaatccatctctctcgcaggcttagtcccagagcttcaggtggggctgcccacagagctcctcagtctaagccaagtggtgtgtcatagtcccctggccccattaatggattctgggatagacatgaggaccaagccaggTGGGATGAGTGAGTGTGGCTTCTGGAGGAAGTGGGGACACAGGACAGCATTCTTTCCTGCTGGACCTGACCCTGTGTCATGTCACCTTGCTACCACGAGAGCATGGCCTGTCTGGGAATGCAGCCAGACCCAAAGAAGCAAACTGACATGGAAGGAAAGCAAAACCAGGCCCTGAGGACATCATTTTAGCCCTTACTCCGAAGGCTGCTCTACTGATTGGTTAATTTTTGCTTAGCTTGGTCTGGGGAGTTCTGACAGGCGTGC
CACCAATTCTTACCGATTTCTCTCCACTCTAGACCCTGAGAAGCCCACGCGGTTCATGCTAGCAATTAACAATCAATCTCGCCCTATGTGTTCCCATTCCAGCCTCTAGGACACAGTGGCAGCCACATAATTGGTATCTCTTAAGGTCCAGCACGAGGTGGAGCACATGGTGGAGAGACAGATGCAGTGACCTGGAACCCAGGAGTGAGGGAGCCAGGACTCAGGCCCAAGGCTCCTGAGAGGCATCTGGCCCTCCCTGCGCTGTGCCAGCAGCTTGGAGAACCCACACTCAATGAACGCAGCACTCCACTACCCAGGAAATGCCTTCCTGCCCTCTCCTCATCCCATCCCTGGGCAGGGGACATGCAACTGTCTACAAGGTGCCAAGTACCAGGACAGGAAAGGAAAGACGCCAAAAATCCAGCGCTGCCCTCAGAGAAGGGCAACCACGCAGTCCCCATCTTGGCAAGGAAACACAATTTCCGAGGGAATGGTTTTGGCCTCCATTCTAAGTGCTGGACATGGGGTGGCCATAATCTGGAGCTGATGGCTCTTAAAGACCTGCATCCTCTTCCCTAGGTGTCCCTCGGGCACATTTAGCACAAAGATAAGCACAAAAGGTGCATCCAGCACTTT--GTTACTATTGGTGGCAGGTTTATGAATGGCAACCAAAGGCAGTGTACGGGTCAAGATTATCAACAGGGAAGAGATagcatttcctgaaggcttcctaggtgccaggcactgttccattcctttgcatgttttgattaatttaatatttaaaataattctaccaggaag--------------ctaccattattaccacaacttcacaaatgagaacaccgaggcttagaggggttgggttgcccaaggttacagaggaagaaaacaggggagctggatctgagccaaggcatcaactccaaggtAACCCCTCAGTCACTTCACTGTGTGTCCCCTGGTTACTGGGACATTC
TTGACAAACTCGGGGCAAGCCGGTGAGTCAGTGGGGGAGGACTTTCAGGAAGAGGTGGGTTCCCAGTTGGTGACAGAAGAGGAGGCTGCAAAGTGAAGGAGCAGGGGCTCCAGGTCTGGCGACAACCAGGGAAGGGACAGGGCAGGGATGGCTTGGACCACGAGAGGCACCTGAGTCAGGCAGTCACATACTTCCCACTGGGGTCTACCATGTGAGGCATGGTGTGGGATCCTGGGAAGGAGACCAAGCCTCATTTCAGTTTGCTTATGGCCAAAGACAGGACCTGTGTACCCGACAACCCCTGGGACCTTTACCAAAAAAAGAGCAAACACCATTCACTCACTCATGTTAGATAAACACTGAGTGAAGTCACTGGAGCCCAAGGACTGTGCGAGGTCAGCACTGCCAATACAAGAAGCTGCAGCCCTCCAGCTCGCctccctcaatggccactccgtgctccagccatgctggcttccttttaggtcctccacctccaggctgtagttcatgtgcttctttctggaatgttcttcccaacctacccactcaaccctcagactttaccataaatgtcatttcctcacgtctgccttccctgacctgagaccaagccaggCTTCCCATGACGAGCCTCACAGTACCCCATCTCCCCTGAACAGATGCAGTAATAACCTACATAACccggggccatgatctatggctttgaatcctggctctgtcactaggccaggtctctcagcccttctgtgcctcagtttcctcatctataaaatgagatgacggcagtgcctgctcatgaagtgtgagttaatgcactcaaatcaatggttgtgcacggtttatatgaatattagtgattaCAAAATATTATCAatagaccttgtcacaactgttattgaagaactaatcatctattgcttatttaggtctttctctcctgccagaatgtgcgctccaggtggagaggtatgttgccttatccgtgg
ctggatatatagagattcccacactgccttgcacacgagcactgctgggtaaatatttgttggctgcaggaaAACGTGAAGGAATAGGCCCTCCAATGGGAGGAAAAGCATGAGTTGTGAGAGCAGAGCCACCACAGGAAACCAGGAGGCTAAGTGGGGTGGAAGGGAGTGAGCTCTCGGACTCCCAGGAGTAAAAGCTTCCAAGTTGGGCTCTCACTTCAGCCCCTCCCACACAGGGAAGCCAGATGGGTTCCCCAGGACCGGGATTCCCCAAGGGGGCTGCTCCCAGAGGGTGTGTTGCTGGGATTGCCCAGGACAGGGATGGCCCTCTCATCAGGTGGGGGTGAGTGGCAGCACCCACCTGCTGAAGATGTCTCCAGAGACCTTCTGCAGGTACTGCAGGGCATCCGCCATCTGCTGGACGGCCTCCTCTCGCCGCAGGTCTGGCTGGATGAAGGGCACGGCATAGGTCTGACCTGCCAGGGAGTGCTGCATCCTCACAGGAGTCATGGTGCCTGTGGGTCGGAGCCGGAGCGTCAGAGCCACCCACGACCACCGGCACGCCCCCACCACAGGGCAGCGTGGTGTTGAGACAACACAGCCCTCATCCCAACTATGCACATAGCTTCAGCCTGCACAGATAGGGGAGTAGGGGACAGAGCATTTGCTGAGAGGCCAGGAGCGCATAGATGGGACTCTGCTGATGCCTGCTGAGTGAATGAGGGAAAGGGCAGGGCCCGGGACTGGGGAATCTGTAGGGTCAATGGAGGAGTTCAGAGAAGGTGCAACATTTCTGACCCCCTACAAGGTGCTTGCTACCTGCCAGGCACCCTTTCCATACCTTGTCTCAGTTCAGCTCCCCACCTTGGATAAACAAGAAACCTTGGTTGCAGAGGAAAAAAGAGGCTGGAAACAAAGGGGTAGAAATGGGGTAGCAGGGGAGATTGCCTGATCAACTGCCAAATGGTACACAGTTCTGGAAAAGCACA
AAAAATGTGCACACACGGGTTCTTCCCACTTTAACCCCTGAGGAATCTGAGGCCTGCTCCTGAAACAGACTGGGCAGTGGCTAGTGACTCTAGGTATAGGAGTATCCAGCCCTGCTCACCCAGGCTAGAGCTTAGGGGGACAAGAGGAAAGAGGTGCCTGTGGGGGTGGAGGACAGGAAGGAAAAACACTCCTGGAATTGCAAAGTGAGGGCAGAGTCTATTTATATTGGGTTTAATTAACTCCTCTCCCTGGTGCCACTAAAGCAGCAATCACACTGCAGACAGCACTGATTTGATTGGCAAGAGATGCACCAGGCAGAATATTAAGGGACCAGGCCCCTATAAATAGGCCTAATCACAGCCCCTCACTGGAAAATGGTAAGGAAGACATTAATCAGGCCTGGCACTGTGCCCTAGACCTGCTCCCCTAGGCACTACAGTGGGGCCCTTGGTTGCAACACAAGTAGGTAGGGATGGATGAGTGTGGCATGAAGGGCCTAGGAGATTTCACTTGGGTTTAAAATGCTGTGACCTTGAGTAAGTTGCCGTCTCTGAATCTGATCCTTTCGATTTCCCATTCTCCAAACTGAGAACTAGCACTGCTGAGACGTGGTTATTTCCAATAATAATTTGTATATTTTACATAACGCACCACACCAACATCTTCACCCAGTTGGAGCCTACTCCTTTGCTCCCGCTGCTGGCTTCCCCAGCCCTCCCTTCTGCCCTCCTCAGGCCAGCACTTTTCAGTGAGTTCCTCCTTTGCATACAGGCTTTCCAGATCTGTACTTGCCTTGAATACTCATCAGAGCCCAGGAGTTACTCCTCACCTCCCACTTATTTTTCCTCCCATCAAATAACTAAAGCATGGCCAGCTGATGCCCAGCCAACTGAGAAACCCAACCCTCTGAGACCAGCACACCCCTTTCAAGCATGTTCCTCCCTCCCCTTCTTTGTATTTATACTGATGCAAGTTTGCTGGCTGTcct
aacttatttctgtgcctcagttctcccatatgtaagatcacaaagggggtaaagaTGCAAGATATTTCCTGTGCACATCTTCAGATGAATTTCTTGTTAGTGTGTGTGTGTTTGCTCACACATATGCGTGAAAGAAGAGTACATACACAGATCTCCTCAAAAAGGAGGCAGCAAGCCCGTTCAAGAATGGGACTGAATACACCTGATGAGTGGTTTACTTTCTGTCTGCAAACATCTACTGATCATCTGTTAGGTGCAGGCCATGATCACAACAAAGACGAATAAGACACTACACTAGCCAGGGAGAGTCTCAAAAACAACTAAACTCAAATTAAATTCATTCTACTCCAGTCATGGGTACAAAGCTAAGGAGTGACAAATCCCTCTTGGAGTTAGGGGAGTCAGGAAAAAGCTCTTAGCAGAATGTGTGCCTCTCggccgggcgcagcggctcacgcctgtaatcccagcactttgggaggcgaaggcaggcagatcacctgaggtcgggagttcgagaccagtctgaccaacatggtgaaactccatctctactaaaaatacaaaattagccaggcgtggtggtgcatgcctgtaatccccgctactcgggaggctgaggaaggagaatcacttgaaccaggaaggtggaggttgcagtgtgccaagatcgcgccatggcactccagcctaggcaacgagggtgaaCCAGGTCCAGGAAGAAGGTGCAAAGACAGCATTCCAGGTAAAAGAAACAGCTTGAACAAAAAGTGTGTAGGGGAACCGCAAGCGGTCTTGAGTGCTGAGGGTACAATCATCCTTGGGGAAGTACTAGAAGAAAGAATGATAAACAGAGGCCAGTTTGTTAAAAACACTCAAAATTAAAGCTAGGAGTTTGGACTTGTGGCAGGAATgaaatccttagacctgtgctgtccaatatggtagccaccaggcacatgcagccactgagcacttgaaatgtggat
agtctgaattgagatgtgccataagtgtaaaatatgcaccaaatttcaaaggctagaaaaaaagaatgtaaaatatcttattattttatattgattacgtgctaaaataaccatatttgggatatactggattttaaaaatatatcactaatttcatctgtttctttttacttttAGAAATCACATATGTGACTTAAATATTTCTTTTCTTTTTCTTTCCTCTCACTCAGCGTCCTGTGATTCCAAAGAAATGAGTCTCTGCTGTTTTTGGGCAGCAGATATCCTAGAATGGACTCTGACCTAAGCATCAAAATTAATCATCATAACGTTATCATTTTATGGCCCCTTCTTCCTATATCTGGTAGCTTTTAAATGATGACCATGTAGATAATCTTTATTGTCCCTCTTTCAGCAGACGGTATTTTCTTATGCTACAGTATGACTGCTAATAATACCTACACATGTTAGAACCATTCTGACTCCTCAAGAatctcatttaactcttattatcagtgaatttatcatcatcccctattttacataaggaaatggggttagaaagaccaaataacattttttcaacatcaaaacactagcttgagatcaagcccagacttggatctgtcgtctgaattccaagctttttgttatttattgatatgttttgttgtTTTCATGCAATAATGCAAATCTTAGCCCAAACATTTTGTTAGTAGTACCAACTGTAAGTCACCTTATCTTCATACTTTGTCTTTATGTAAACCTAAATTAGATCTGTTTTTGATACTGAGGGAAAAACAAGGGAATctaacactaaccagcccgtagtgtgtggtcaacactttcgttactttagtatacatcaccccaattgtttgtcttcaccacacactttggagttaggtagtagtatctatttttacaaataagaaaacccaggcacaaaggggttgattagcAATTATCTTTTGAAAAGCCTGTAGTTGCTC
ATCTGAAGAAGTGACGGACCACCTCTTATTTAGTGGACAGACAGTAACTAGTTGAGAAGACAGGGGATTTTGTTGGCGGAAAAAAAAATTTATCAAAAGTCGTCTTCTATCAGGGAGTTTTATGAGAAACCCTAGCTCCTCAGTTCCACAGTGGGTAACTGTAATTCATTCTAGGTCTGCGATATTTCCTGCCTATCCATTTTGTTAACTCTTCAATGCATTCCACAAATACCTAAGTATTCTTTAATAATGGTGGTTTTTTTTTTTTTTTGCATCTATGAAGTTTTTTCAAATTCTTTTTAAGTGACAAAACTTGTACATGTGTATCGCTCAATATTTCTAGTCGACAGCACTGCTTTCGAGAATGTAAACCGTGCACTCCCAGGAAAATGCAGACACAGCACGCCTCTTTGGGACCGCGGTTTATACTTTCGAAGTGCTCGGAGCCCTTCCTCCAGACCGTTCTCCCACACCCCGCTCCAGGGTCTCTCCCGGAGTTACAAGCCTCGCTGTAGGCCCCGGGAACCCAACGCGGTGTCAGAGAAGTGGGGTCCCCTACGAGGGACCAGGAGCTCCGGGCGGGCAGCAGCTGCGGAAGAGCCGCGCGAGGCTTCCCAGAACCCGGCAGGGGCGGGAAGACGCAGGAGTGGGGAGGCGGAACCGGGACCCCGCAGAGCCCGGGTCCCTGCGCCCCACAAGCCTTGGCTTCCCTGCTAGGGCCGGGCAAGGCCGGGTGCAGGGCGCGGCTCCAGGGAGGAAGCTCCGGGGCGAGCCCAAGACGCCTCCCGGGCGGTCGGGGCCCAGCGGCGGCGTTCGCAGTGGAGCCGGGCACCGGGCAGCGGCCGCGGAACACCAGCTTGGCGCAGGCTTCTCGGTCAGGAACGGTCCCGGGCCTCCCGCCCGCCTCCCTCCAGCCCCTCCGGGTCCCCTACTTCGCCCCGCCAGGCCCCCACGACCCTACTTCCCGCGGCCCCGGACGCCTCCTCACC
TGCGAGCCGCCCTCCCGGAAGCTCCCGCCGCCGCTTCCGCTCTGCCGGAGCCGCTGGGTCCTAGCCCCGCCGCCCCCAGTCCGCCCGCGCCTCCGGGTCCTAACGCCGCCGCTCGCCCTCCACTGCGCCCTCCCCGAGCGCGGCTCCAGGACCCCGTCGACCCGGAGCGCTGTCCTGTCGGGCCGAGTCGCGGGCCTGGGCACGGAACTCACGCTCACTCCGAGCTCCCGACGTGCACACGGCTCCCATGCGTTGTCTTCCGAGCGTCAGGCCGCCCCTACCCGTGCTTTCTGCTCTGCAGACCCTCTTCCTAGACCTCCGTCCTTTGTCCCATCGCTGCCTTCCCCTCAAGCTCAGGGCCAAGCTGTCCGCCAACCTCGGCTCCTCCGGGCAGCCCTCGCCCGGGGTGCGCCCCGGGGCAGGACCCCCAGCCCACGCCCAGGGCCCGCCCCTGCCCTCCAGCCCTACGCCTTGACCCGCTTTCCTGCGTCTCTCAGCCTACCTGACCTTGTCTTTACCTCTGTGGGCAGCTCCCTTGTGATCTGCTTAGTTCCCACCCCCCTTTAAGAATTCAATAGAGaagccagacgcaaaactacagatatcgtatgagtccagttttgtgaagtgcctagaatagtcaaaattcacagagacagaagcagtggtcgccaggaatggggaagcaaggcggagttgggcagct
+s panTro2.chr15 23958 8553 - 100063422 CCTGCCCTGCTTAAAATCCAATCACAGCTCCCTAACACTCCTGAATCAACTTGAAGTCCTGTCTTGAGTAATCCGTGGGCCCTAACTCACTCACCCCAACTCTTCACTCACTGCCTTGCCCCACACCCTGCCAGGGAGCCTCCCGTGGCACCGTGGGGACACAAAGGAACCAGGGCAAAGCTCCCTCAGCCCCATTCAAAGAGGCCTGGCCCACAGGCTCACGGAAAGTCAGCCTCTCATGCCCCGAGAGATGAGTGCAAGGGAGAGGCAGCGCTGTCTGTGCTTCCCATGCAGAAGCACCCTCCTCCCACCCCTGTGCAGGCCGGCCTTCATGGCAGACCACCATACACCACGTTCCAAGCCACACTGAGGCCTCTCTCCAAGCCCGCGGCCCCCATTTCCAGACCCCACCAGGGCAACCTGCATATCCACCTCCCTACCCTGCCCCCCTCTTCCAGGAGTCTGCCCTATGTGGAGTAAGCACgtggttttcctcttcagcaactatttcctttttactcaagcaatggccccatttcccttggggaatccatctctctcgcaggcttagtcccagagcttcaggtggggctgcccacagagttcctcagtctaagccaagtggtgtgtcatagtcccctggccccagtaatggattctgggatagacatgaggaccaagccaggtgggatgggtaagtgtggcttctggaggaagtggggacacaggagagcattctttcctgctggACCTGACCCTGTGTCATGTCACCTTGCTACCACGACAGCATGGCCTGTCTGGGAATGCAGCCAGACCCAAAGAAGCAAACTGACATGGAAGGAAAGCAAAACCAGGCCCTGAGGACATCATTTTAGCCCTTACTCCGAAGGCTGCTCTACTGATTGTTTAATTTTTGCTTAGCTTGGTTTGGGGAGTTCTGACAGGCGTGC
CACCAATTCTTACCGATTTCTCTCCACTCTAGACCCTGAGAAGCCCACGCGGTTCATGCTAGCAATTAACAATCAATCTCGCCCTATGTGTTCCCATTCCAGCCTCTAGGACACAGTGTCAGCCACATAATTGGTATCTCTTAAGGTCCAGCACGAGGTGGAGCACATGGTGGAGAGACAGATGCAGTGACCTGGAACCCAGGAGTGAGGGAGCCAGGACTCAGGCCCAAGGCTCCTGAGAGGCATCCGGCCCTCCCTGGGCTGTGCCAGCAGCTTGGAGAACCCACACTCAATGAACGCAGCACTCCACTACCCAGGAAATGCCTTCCTGCCCTCTCCTCATCCCATCCCTGGGCAGGGGACATGCAACTGTCTACAAGGTGCCAAGTACCAGGACAGGAAAGGAAAGATGCCAAAAATCCAGGGCTGCCCTCAGAGAAGGGCAACCATGCAGTCCCCATCTTGGCAAGGAAACACAATTTCCGAGGGAATGGTTTTGGCCTCCATTCTAAGTGCTGGACATGGGGTGGCCACAATCTGGAGCTGATGGCTCTTAAAGACCTGCGTCCTCTTCCCTAGGCGTCCCTTGGGCACATCTAGCACAACGATAAGCACAAAAGGTGCATCCAGCACTTTCTGTTACTATTGGTGGCAGGTTCATGAATGGCAACCAAAGGCAGTGTACGGGTCAAGATCATCAACGGGGAAGAGATagcatttcctgaaggcttcctaggtgccaggcactgttccattcctttgcatgttttgattaatttaatatttacaataattctaccaggaagaattattaccattattaccattattaccacaacttcacaaatgagaacactgaggcttagaggggttgggttgtccaaggttacagaggaagaaaacaggggagctggatctgagccaaggcatcaactccaaggtAACCCCTCAGTCACTTCAGTGCGTGTGCCCTGGTTACTGGGACATTC
TTGACAAGCTTGGGGCAAGCCGGTGAGTCAGTGGGGGAGGACTTTCAGGAAGAGGTGGGTTCCCAGTTGGTGACAGAAGAGGAGGCTGCAAAGTGAAGGAGCAGGGGCTCCAGGTCTGGCGACAACCAGGGAAGGGACAGGGCAGGGATGGCTTGGACCACGAGAGGCACCCGAGTCAGGCAGTCACATACTTCCCGCTGGGGTCTACCATGTGAGGCATGGTGTGGGATCCTGGGAAGGAGACCAAGCCTCATTTCAGTTTGCTTATGGCCAAAGACAGGACCTGTGTACCCGACAACCCCTGGGACCTTTGCCAAAAAAACAGCAAACACCATTCACTCACTCATGTTAGATAAACACTGAGTGAAGACACTGGAGCCCAAGGACTGTGCGAGGTCAGCGCTGCCAATACAAGAAGCTGCACCCCTCCAGCTCGCctccctcaatggccactctgtgctccagccatgctggcttccttttaggtcctccacctccaggctgtagttcatgtgcttctttctggaatgttcttcccaacctacccactcaaccctcagactttaccataaatgtcatttcctcacatctgccttccctgacctgagaccaagccaggcttcccatgacgagcctcacagtacccCATCTCCGCTGAACAGATGCAGTAATAACCTACATAACccggggccatgatctatggctttgaatcctggctctgtcacttggccaggtctctcagcctttctgtgcctcagtttcctcatctataaaatgagatgacggcagtgcctgctcatgaagtgtgagTTAATGCACTCAAATCAATGGTGGTGCACGGTTTATATGAATATTAGTGATTACAAAATATTATCAATAGACCTTGTCACAACTGTTATTGAAGAATTAATCATGTAttggttatttaggtctctctctcctgccagaatgtgcgctcca--tggagaggtatgttgccttatccgtgg
ctggatatatagagattcccacactgccttgcacaccagcactgctgggtaaatatttgctggctgcaggaaAACGTGAAGGAATAGGCCCTCCAGTGGGAGGAAAAGCACGAGTTGTGAGAGCAGAGCCACCACAGGAAACCAGGAGGCTAAGTGGGGTGGAAGGGACTGAGCTCTCGGACTCCCAGGAGTAAAAGCTTCCAAGTTGGGCTCTCACTTCAGCCCCTCCCACACAGGGAAGCCAGATGGGTTCCCCAGGACCAGGATTCCCCAAGGGGGCTGCTCCCAGAGGGTGTGTTGCTGGGATATCCCAGGACAGGGATGGCCCTCTCATCAGGTGGGGGTGGGTGGCAGCACCCACCTGCCGAAGATGTCTCCAGAGACCTTCTGCAGGTACTGCAGGGCATCCGCCATCTGCTGGACGGCCTCCTCTCGCCGCAGGTCTGGCTGGATGAGGGGCACGGCATAGGTCTGACCTGCCAGGGAGTGCTGCATCCTCACAGGAGTCATGGTGCCTGTGGGTGGGAGCCGGAGCATCAGAGCCACCCACGACCACCTGCACCCACCCACCACAGGGCAGCGTGGTGTTGAGACAACACAGCCCTCATCCCAACTATGCACATAGCTTCAGCCTGCACAGATAGGGGAGTAGGGGACAGAGCATTTGGTGAGAGGCCAGGAGCGCATAGATGGGACTCTGCTGATGCCTGCTGAGTGAATGAGGTAAAGGGCAGGACCAGGGACTGGGGAATCTGTAGGGTCAATGGAGGAGTTCAGAGAAGGTGCAACATTTCTGACCCCCTACAAGTTGCTTGCTACCTGCCAGGTACCCTTTCCATACATTGTCTCAGTTCAGCTCCCTACCTTGGATAAACAAGAAACCTTGGTTGCGGAGGAAAAAAGAGGCTGGAAACAAAGGGGTAGAAATGGGGTAGTGGGGGAGATTGCCTGATCAACTGCCAAATGGTACCCAGTTCTGGAAAAGCACA
AAAAATGTGCACACACGGGTTCTTCCCACTTTAACCCCTGAGGAATTTGAGGCCTGCTCCTGAAACAGACTGGGCAGTGGCTAGTGACTCTAGGTATAGGAGTATCCAGCCCTGCTCACCCAGGCTAGAGCTTAGGGGGCCAAGAGGAAAGAGGTGCCTGTGGGGGTGGAGGACAGGAAGGAAAAACACTCCTGGAATTGCAAAGTGAGGGCAGAGTCTATTTATATTGGGTTTAATTAACTCCTCTCCCTGGTGCCACTAAAGCAGCAATCACACTGCAGACAGCACTGATTTGATTGGCAAGAGATGCACCAGGCAGAATATTAAGGGACCAGGCCCCTATAAATAGGCCTAATCACAGCCCCTCGCTGGAAAATGCTAAGGAAGACATTAATCAGGCCTGGCACTGTGCCCTAGACCTGCTCCCCTAGGCACTACAGTGGGGCCCTTGGTTGCAACACAAGTAGGTAAGGATGGATGAGTCTGGTATGAAGGGCCTAGGAGATTTCATTTGGGTTTAAAATGCTGTGACCCTGAGTAAGTTGCTGTCTCTGAATCTGATCCTTTCCATTTCCCATTCTCCAAACTGAGAACTAGCACTGCTGAGACGTGGTTATTCCCAATAATAATTTGTATATTTTACATAACGTACCACACCAACATCTTCACCCAGCTGGAGCCTACTCCTTTGCTCCCCCTGCTGGCTTCCCCAGCCCTCCCTTCTGCCCTCCTCAGGCCAGCACTTTTCAGTGAGTTCCTCCTTTGCATACAGGCTTTCCAGATCTGTACTTGCCTTGAATACTCATCAGAGCCCAGGAGTTACTCCTCACCTCCCACTTATTTTTCCTCCCATCAAATAACTAAAGCATGGCCAGCTGATGCCCAGCCAACTGAGAAACCTAACCCTCTGAGACCACCACACCCCTTTCAAGCATGTTCCTCCCTCCCCTTCTTTGTATTTATACTGACGCAAGTTTGCTGGCTGTcct
aacttatttctgtgcctcagttctcccatatgtaagatcacaaagggggtaaagatgcaagATATTTCCTGTGCACATCTTCAGATGAATTTCT------TGTGTGTGTGTTTGCTCACACATATGCGTGAAAGAAGAGTACATACACAAAT---CTCAAAAAGGAGGCAGCAAGCCCGTTCAAGAATGGGACTGAATACACCTGATGAGTGGTTTACTTTCTGTCTGCAAACATCTACTGATCATCTGTTAGGTGCAGGCCATGATCACAACAAAGACGAATAAGACACTACACTAGCCAGGGAGAGTCTCAAAAACAACTAAACTCAAATTAAATTCATTCTAATCCAGTCATGAGTACAAAGCTAAGGAGTGACAAATCCCTTTTGGAGTTAGGGGAGTCAGGAAAAAGCTCTTAGCAGAATGTGTGCCTCTCggctgggcacagcggctcacgcctgtaatcccagcactttgggaggcgaaggcaggcagatcacctgaggtcaggagttcgagaccagtctgaccaacatggtgaaactccatctctactaaaaatacaaaattagccaggcgtggtggtgcatgcctgtaatcccagctactcgggaggctgaggaaggagaatcacttgaaccggggaggtcgaggttgcagtgtgccgagatcgcgccattgcactccagcctgggcaacaaaagtgaaCCAGGTCCAGGAAGAAGGTGCAAAGACAGCATTCCAGGTAAAAGAAACAGCTTGAACAAAAAGTGTGTAGGGGAACAGCAAGCGGTCTTGAGTGCTGAGGGTACAATCATCCTTGGGGAAGTACTAGAAGAAAGAATGATAAACAGAGGCCAGTTTGTTAAAAACACTCAAAATTAAAGCTAGGAGTTTGGACTTGTGGCAGGAATgaaatccttagacctgtgctgtccaatatggtagccaccaggcacatgcagccactgagcacttgatatgtggat
agtctgaattgagatgtgccataagtgtaaactatgcaccaaatttcaaagactagaaaaaaagaatgtaaaatata-----attttatattgattacatgctaaaataaccatatttgggatatactggattttaaaaatatattgctaatttcatctgtttctttttacttttAGAAATCACATATGTGACTTAAATATTTCTTTTCTTTTTCTTTCCTCTCACTCAGCGTCCTGTGATTCCAAAGAAATGAGTCTCTGCTCTTTTTGGGCAGGAGATATCCTAGAATGGACTCTGACCTAAGAATCAAAATTAATAATCATAACGTTATCATTTTATGGCCCCTTCTTCCTATATCTGGTAGCTTTTAAATGATGACCATGTAGATAATCTTTATTATCCCTCTTTCAGCAGACGGTATTTTCTTATGCTACAGTATGACTGCTAATAATACCTACATACGTTAGAACCATTCTGACTCCTCAAGAatctcatttaactcttattatcagtgaatttatcatcatccccaattttagataaggaaatggggttagaaagaccaaataacattttttcaacatcaaaacactagcttgagatcaagcccaaacttggatctgttgtctgaattccaagctttttg----ttattgatatgttttgttgtTTTCATGCAATAATGCAAATCTTAGCCCAAACATTTTGTTAGTAGTACCAACTGTAAGTCACCTTATCTTGATACTTTGTCTTTATGTAAACCTAAATTAGATCTGTTTTTGATACTGAGGGAAAAACAAGGGAATCTAACACTAACCagcccgtagtgtgtggtcaacactttcgttactttagtatacatcaccccaattgtttgtcttcaccacacactttggagttaggtagtactatctatttttacaaataagaaaacccaggcacaaaggggttgattagcAATTATCTTTTGAAAAGCCTGTAG-TGCTC
ATCTGAAGAAGTGACGGACCATCTCTTATTTAGTGGACAGACAATAACTAGTTGAGAAGACAGGGGATTTTGTTGGCGGAAAAAAAAATTTATCAAAAGTCGTCTTCTATC--GGAGTTTTATGAGAAACCCTAGCTCCTCAGTTCCACAGTGGGTAACTGCAATTCATTCTAGGTCTGCGATATTTCCAGCCTATCCATTTCGTTAACTCTTCAATGCATTCCATAAATGCCTAAGTATTCTTTAATAATGGTGG--TTTTTTTTTTTTTGCATCTATGAAGTTTTTTCAAATTCTTTTTAAGTGACAAAACTTGTACATGTGTATCGCACAATATTTCTAGTCGACAGCACTGCTTTCGAGAATGTAAACCGTGCACTCCCAGGAACATGCAGACACAGCGCGCCTCTTTGGGACCACGGTTCATAATTTGGGAGTGCTCGGAGCCCTTCCTCCAGACCGTTCTCCCACACCCCGCTCCAGGGTCTCTCCCGGAGTTACAGGCCTCGCTGTAGGTCCCGGGAACCCAACGCGGTGTCAGAGAAGTGGGGTCCCCTACGAGGGACCAGGAGCTCCGGGCGGGCAGCAGCTGCGGAAGAGCCGCGCGAGGCTTCCCAGAACCCGGCCGGGGCGGGAAGACGCAGGAGTGGGGAGGCGGAACCGGGACCCCGCAGAGCCCGGGTCCCTGCGCCCCACAAGCCTTGGCTTCCCTGCTAGGGCCGGGCAAGGCCGGGTGCAGGGCGCGGCTCCAGGGAGGAAGCTCCGGGGCGAGCCCAAGACGCCTCCCGGGCGATCGGGGCCCAGCGGCGGCGTTCGCAGTGGAGCCGGGCACCGGGCAGCGGCCGCGGAACACCAGCTTGGCGCAGGCTTCTCGGTCAGGAACGGTCCCGGGCCTCCCGCCCGCCTCCCTCCAGCCCCTCCGGGTCCCCTACTTCGCCCCGCCAGGCCCCCACGACCCTACTTCCCGCGGCCCCGGACGCCTCCTCACC
TGCGAGCCGCCCTCCCGGAAGCTCCCGCCGCCGCTTCCGCTCTGCCGGAGCCGCTGGGTCCTAGCCCCGCCGCTCACAGTCCGCCCGCGCCTCCGGGTCCTAACGCCGCCGTTCACCCTCCGCTGCGCCCTCCCCGAGCGCGGCTCCAGGACCCCGTCGACCCGGAGCGCTGTCCTGGCGGGCCGAGTCGCGGGCCTGGGCACGGAACTCACGCTCACTCCGAGCTCCCGACGTGCACACGGCTCCCATCCGTTGTCTTCCGAGCGCAGGGCCTCCCCTACCCGTGCTTTCTGCTCTGCAGACCCTCTTCCCAGACCTCCGTCCTTTGTCCCATCGCTGCCTTCCCCTCAAGCTCAGGGCCAAGCTGTCCGCCAGCCTCGGCTCCTCCGGGCAGTCCTCGCCCTGGGTGCGCCCCGGGGCAGGACCCCCAGCCCAGGCCCAGGGCCCGCCCCTGCCCTCCAGCCCTACACCTTGACCCGCTTTCCTGCCTCTCTCAGCCTACCTGACCTTGTCTTTACCTCTGTGGGCAGCTCCCTTGTGATCTGCTTAGTTCCCA-CACCCTTTAAGAATTAAATAGAGaagccagacgcaaaactacagatatcgtatgagtccacttttgtgaagtgcctagaatagtcaaaattcacagagacagaagcagtggtcgccaggaatggggaagcaaggcggagatgggcagct
+
+a score=78125
+s hg18.chr1 19890 845 + 247249719 cgtgttcaatgggtagagtttcaggctggggtgatggaagggtgctggaaatgagtggtagtgatggcggcacaacagtgtgaatctacttaatcccactgaactgtatgctgaaaaatggtttagacggtgaattttaggttatgtatgttttaccacaatttttaaaaaGCTAGTGAAAAGCTGGTAAAAAGAAAGAAAAGAGGCTTTTTTAAAAAGTTAAATATATAAAAAGAGCATCATCAGTCCAAAGTCCAGCAGTTGTCCCTCCTGGAATCCGTTGGCTTGCCTCCGGCATTTTTGGCCCTTGCCTTTtagggttgccagattaaaagacaggatgcccagctagtttgaattttagataaacaacgaataatttcgtagcataaatatgtcccaagcttagtttgggacatacttatgctaaaaaacattattggttgtttatctgagattcagaattaagcattttatattttatttgctgcctctggccaccctaCTCTCTTCCTAACACTCTCTCCCTCTCCCAGTTTTGTCCGCCTTCCCTGCCTCCTCTTCTGGGGGAGTTAGATCGAGTTGTAACAAGAACATGCCACTGTCTCGCTGGCTGCAGCGTGTGGTCCCCTTACCAGAGGTAAAGAAGAGATGGATCTCCACTCAtgttgtagacagaatgtttatgtcctctccaaatgcttatgttgaaaccctaacccctaatgtgatggtatgtggagatgggcctttggtaggtaattacggttagatgaggtcatggggtggggccctcattatagatctggtaagaaaagagaGCATTGtctctgtgtctccctctc
+s panTro2.chrUn 57103829 845 - 58616431 tgtgttcaatgggtagagtttcaggctggggtgatggaagggtgctggaaatgagtggtagcgatggcggcgcaacagtgtgaatctacttaatcccactgaactgtatgcttaaaaatggtttagacggtgaattttaggttatgtatgttttaccacaatttttaaaaaGCTAGTGAAAAGCTGGTAAAAAGAAAGAAAAGAGGCTTTTTTAAAAAGTTAAATATATAAAAAGAGCATCATCAGTCCAAAGTCCAGCAGTTGTCCCTCCTGGAATCCGTTGGCTTGCCTCCGGCATTTTTGGCCCTTGCCTTTtagggttgccagattaaaatacaggatgcccagttagtttgaattttagataaacaacgaataatttcgtagcataaatatgtcccaagcttagtttgggacatacttatgctaaaaaacattattggttgtttatctgagattcaaaattaagcattttatattttatttgctgcctctggccaccctaCTCTCTTCCTGACACTCTCTCCCTCTCCCAGTTTTGTCCGCCTTCCTTGCCTCCTCTTCTGGGGGAGTTAGATCGAGTTGTAACAAGAACATGCCACTGTCTCACTGGCTGCAGCGTGTGGTCCCCTTACCAGAGGTAAGGAAGAGATGGATCTCCACTCAtgttgtagacagaatgtttatgtcctctccaaattcttatgttgaaaccctaacccctaatgtgatggtatgtggagatgggcctttggtaggtaattacggttagatgaggtcatggggtggggccctcattatagatctggtaagaaaagagagcattgtctctctgtctccctctc
+
+a score=1847
+s hg18.chr1 20735 23 + 247249719 tctctctctctctctctctcatt
+s panTro2.chr15_random 1995870 23 - 3087076 tctctctctctctccctctcttt
+
+a score=89580
+s hg18.chr1 20758 992 + 247249719 tctctctatctcatttctctctctctcgctatctcatttttctctctctctctttctctcctctgtcttttcccaccaagtgaggatgcgaagagaaggtggctgtctgcaaaccaggaagagagccctcaccgggaacccgtccagctgccaccttgaacttggacttccaagcctccagaactgtgagggataaatgtatgattttaaagtcgcccagtgtgtggtattttgttttgactaatacaaCCTGAAAACATTTTCCCCTCACTCCACCTGAGCAATATCTGAGTGGCTTAAGGTACTCAGGACACAACAAAGGAGAAATGTCCCATGCACAAGGTGCACCCATGCCTGGGTAAAGCAGCCTGGCACAGAGGGAAGCACACAGGCTCAGggatctgctattcattctttgtgtgaccctgggcaagccatgaatggagcttcagtcaccccatttgtaatgggatttaattgtgcttgccctgcctccttttgagggctgtagagaaaagatgtcaaagtattttgtaATCTggctgggcgtggtggctcatgcctgtaatcctagcactttggtaggctgacgcgagaggactgcttgagcccaagagtttgagatcagcctgggcaatattgtgagattccatctctacaaaaataaaataaaatagccagtcatggtgtcacacacctgtagtcccagctacatgggaggctgaggcgggaggatcacttgagcttgggagatcgaggctgcagtgagctatgattgtaccactgcactccaggctgggcgacagagagagaccctgtctcagaaaaaaaaaaaaaaGTACTTTGTAATCTGTAAGGTTTATTTCAACACACACAAAAAAAGTGTATATGCTCCACGATGCCTGTGAATATACACACACACCACATCATATACCAAGCCTGGCTGTG
TCTTCTCACAAATGCACTGCTAGGCACCACCCCCAGTTCTAGAA
+s panTro2.chrUn 57104674 981 - 58616431 tctctctatgtcatttctctctct----ctatctca--tttctctctctctctctctctcctctgtcttttcccaccaagtgaggatgcgaagagaaggtggctgtctgcaaaccaggaagagagccctcaccaggaacccgtccagctgccaccttgaacttggacttccaagcctccagaactgtgagggataaatgtatgattttaaagtcgcccagtgtgtggtattttgttttgactaatacaaCCTGAAAACATTTTCCCCTCACTCCACCTGAGGAATATCTGAGTGGCTTAATGTACTCAGGACACAACAA---AGAAATGTCCCATGCACAAGGTGCACCCATGCCtgggtaaagcagcctggcacagagggaagcacacaggctcagggctctgctattcattctttgtgtgaccctgggcaagccatgaatggagcttcagtcaccccatttgtaatgggatttaattgagcttgccctgcctccttctgagggctgtagagaaaagatgtcaaagtattttgtaatctggctgggcgtggtggctcatgcctgtaatcccagcactttggtaggctgacgcgagaggactgcttgagcccaagagtttgagatcagcctgggcaatattgtgagattccatctctacaaaaataaaataaaatagccagtcatggtgtcacacacctgtagtcccagctacatgggaggctgaggcgggaggatcacttgagcttgggagatcgaggctgcagtgagctatgattgtaccactgcactccaggctgggcgacagagagagaccctgtctcag--aaaaaagaaaaagtactttgtaatctgtaaggtttatttcaacacACACAAAAAAAGTGTATATGCTCCACGATGCCTGTGAATATACACACACACCACATCATATACCAAGCCTGGCTGTG
TCTTCTCACAAATGCGCTGCTGGGCACCACCCCCAGTTCTAGAA
+
+a score=178881
+s hg18.chr1 21750 2038 + 247249719 TCACACCAGCCAGTTCACCCTCCAGATGGTTCACCCTCAACTTCATAAAAGTTCCCTACCTAATCTACT---GACAGGCTCATCCCCGACCTAATTTTAAAGATTTCCTAGGA----------------------------------GCTGCAGTGGGAATCCTGGACCTCAGCCTGGACAAAGAACAGCTGCAGGTCATTCTCATGTGTGGACACAGAAGCTCTGCCTGCCTTTGCTGGCCAGCTGGGCTGAGCGGGCCTGGGAA-TTAAGGCTGCAGGGTTGGTCCCAGGCAGTCTTGCTGAAGCTTGCCACATCCCCCAGCCTCCTGGATTTGCCAGGATCCAAGAGCATGGACTTTAGGAATTCCTGGTGGAGGAGTGAAGAAAATGTGACAGGGTGTCCTAAGCCCCGATCTACAGGAAGAAAACTGGAAATAAGACTGAGGACTTAGTTTAAGATGTTCCTACTCAGCCTCTAGCTTTTGTGCTACAGTTCTGGGAACAGACTCCTCTCTCCTGAAAACCACTTCCCTCCGCAGCATTAGATTTCACCAAGATGTCTTGCTTGTGGGAAAGACTTCCAAGGATGCCTGGAGAGAGGAGGATGGAAATGTCCTGCTCTCTAAACAGATAGACAGATGCAGCCAGACAGAAAATAGTTTATCTTGCTGAGGTTTCTAATGTATTTGAAAGAGGCCTGGGTCTAGAAGTCTACCCAGAGGGCTCTGTGTTGTGCACGCAAAGATAAGAACCTTCCCTGTGGGAGTTCCAGAGCCAGTTTTCATAAACACCCATCGGTGACTGTGTTCAGAGTGAGTTCACACCATCCTGACCTGCCCTGAGTTAGACCTTACATGGTCTTCCTCCTCTAGGAAGCCTCTGCAGCCCAGGAACCTCCCCTTATCGGAAATGAACAGCATTTGAAGCTTCACCAGACAGACCAGAC
AGCTTAGCCCTCGTGTTGTGCCATGTGGGTTGTTCTCTGAGAGGcaggagagcatagtggttactaggaagggaaggactttgggactagactgcctcggctggagtcctctttctgcttcatagccacgtgatcctaggcatgttacctgtgcctcagttttcactctgtcaatatgtaataactgaatctgtctttgtggtgaggattcagtgagttaacatatttgaagtgcttaaaaATGAGGCTTGtgtccatagattaatgagtgaatacacaaatggtgatatggacatacagtggagtattagtcataaaaaggaaggcagagctgatccatggcaccatgtgacagaacctcaaaagcattaggttaagtggaagaagccagacacaggtcacctattgtgtaattccatttataggaaatatacagaatatgtaaatccgtggagaaagaaagccgatttccaggggctaaggggaggggagaatgggaagtggctgcttcatgggtacaaggtttcattttgagctgatgaaaatgttttggaactacatagagatagtgttggcacaacatggtgaatgtactgaatgccactgattgttcaatttaaaatggtcaaacttatatgaatttcacctccatt-aaaaaaaAAAAAAAAGgaccagatgtggttgctcacacccataatcccaacactttggaaAAAGGTGAAAGTTTTTTTTtctt------tttttttttatatacttaagttctagggtacatgtgcataatgtgcaggttggatacatagatatgcgtgtgccatgttggtttgctgcacccatcaacttgtcatttacattaggtatttcttctaatgctatccctcccccagccccccacccactgacaggccccagtgtatgatgttctctgccccatgtccaagcgttctcattgttcaattcccacctgtgagtgagaacatgcagtgtt
tggttttctgtctttgtgatagtttgctcagaatgatggtttccagcttcatccatgtccctgcaaaggacatgaactcatcctttttaatgg-ctgcatagtat-cccatggt-atatatgtgcc-acattctcttaatcc-agtctgtca
+s panTro2.chrUn 57107018 2082 - 58616431 CCAGACCAGACAGTTCACCCTCCAGACGGTTCACCCTCAACTGTATAAAAGTTCTCTACCTAATCTACTACTGACAGACTCATCTCAGACCTAATTTTAAAGATTTCCTAGGAACTGAATTGCAAAAACTTTTACCCTCACCCTAGAGCTGCAATGGGAATCCTG-ACCTCAGCGTAGACAAAGAAAAGCTGCAGGTCATTCTCATGTGTGGACACGGAAGCCCTGCCTGCCTTTGCTGGCCAGCTGGGCTGAGTGGGCCTGGGAAATTAAGGCTGCAGGGTTGGTCCCAGGCAGTCTTGCTGAAGCTTGCCACATCCCCCAGCCTCCTGGATTTGCCAGGATCCAAGAGCATGGACTTTAGGAATTCCTGGTGGAGGAGTGAAGAAAATGTGACAGGGTGTCCTAGGCCCCAATCTACAGGAAGAAAACTGGAAATAAGACTGAGGACTTAGTTTAAGATGTTCCTACTCAGCCTCTAGCTTTTGTGCTACAGTTCTGGGAACAGACTCCTCTCTCCTGAAAACCACTTCCCTCTGCAGCATTAAATTTCACCAAGATGTCTTGCTTGTGG-AAAGACTTCCAAGGATGCCTGGAGAGAGGAGGATGGAAATGTCCCGCTCTCTAAACAGATAGACAGATGCAGCCAGACAGAAAATAGTTTATCTTGCTGAGGTTTCTAAT----TTGAAAGAGGCCTGGGTCTAGAAGTCTACCCAGAGGGCTCTGTGTTGTGCAGGCAAAGATAAGAACCTTCCCTGTGGGAGTTCCAGAGCCAGTTTTCATAAACACCCATCGGTGACTGTGTTCAGAGTGAGTTCACACCATCCTGACCTGCCCTGAGTTAGACCTTACATGGTCTTCCTCCTCTAGGAAGCCTCTGCAGCCCAGGAACCTCCCCTTATCTGAAATGAACAGCATTTGAAGCTTCACCAGACAGACCAGAC
AGCTTAGCCCTCGTGTTGTGCCATGTGGGTTGTTCTCTGAGAGGcaggagagcatagtggttactaggaaggggaggactttgggactagactgcctcggctggagtcctctttctgcttcatagccacgtgatcctaggcatgttacctgtgcctcagttttcactctatcaatatgtaataactgaatctgtccttgtggtgaggattcagtgagttaacatatttgaagtgcttaaaaATGAGGCTTGtgtccatagattaatgagtgaatacacacatggtgatatggacatacagtggagtattagtcataaaaaggaaggcagagctgatccatggcaccatgtgactgaacctcaaaagcattaggttaagtggaagaagccagacacaggtcacctattgtgtaattccatttataggaaatatacagaatatgtaaatccgtggagaaagaaagccgatttccaggggctaaggggaggggagaatgggaagtggctgcttcatgggtacaaggtttcattttgaggtgatgaaaatgttttggaactacacagagatagtgttggcacaacatggtgaatgtactgaatgccactgattgttcactttaaaatggtcaaacttatgtgaatttcacctccattaaaaaaaAAAAAAAAAGgaccagatgtggttgctcacacccataatctcaacactttggaaAAAGGTGAAAGATTTTTTTTCTTTTtttctttttttttatatacttaagttctagggtacatgtgcataatgtgcaggttggatacatagatatgcgcgtgccatgttggtttgctgcacccatcaacttgccatttacattaggtatttctcctaatgctatccctcccccagccccccacccactgacaggccccagtgtgtgatgttctctgccccatgtccaagcgttctcactgttcaattcccacctgtgagtgaaaacatgcagtgtt
tggttttctgtctttgtgatagtttgctcagaaggatggtttccagcttcatccacgtccctgcaaaggacataaactcatcctttttaatgntcttcatagaatccccatggtaatatatgtgccaacattttcttaatccaagtctgtca
+
+a score=157011
+s hg18.chr1 23788 1709 + 247249719 ttgatggacatttgggttggttcaaagtctttgctattgtgaatactgccacaataaacatacatgtgcatgtgtctttatagtagcacgatttataatcctttgggtatatacccTAAGACctgggacgcatttaaagcagtgtgtaaagagacatttatagcactaaatgcccacaagagaCCTCTGCCTGAGAACGTGGGTTTCAGCCTAAGAGTTGTAATATGTGTGCCCATTCACAGGTGCTGCATCAGAGTCCCAGGTGGGAAGAAGGCAAGCATACACAAAAATGGTAAaaggcagaaaggagcccagtctcgttctttttaagaagttttcctaagaatctccacccagcgacttgctctcacatcttcttggccagcactggaccacacaactccttctagatacagaggagTCCTAGGATTCTATGAGAAAGAAGGGGAGGGTGGGCAAAGGGCAGCCAGCTGTGCAGCATCTGCTGGAGACACCTAACCCTTGGTGGAGGGGTTGTGGTGCTGGgagaaggctttctggacggtgtgacagcagagataaacttaaaggccaagtaggagttaccctggtgaagcagggcagggttacaagcattccagcaacatgaagcagcaGGAGtgttttaattaaaagaaggcagttgctgtaaccaactataaacaaataaaggcttaaacacaatggaagtttatttctcactaagggaacatccaaatccatgatactttaagtcagggacccaggttcctcccatctatggttctgccatcactaatctgggtcttccacaattgccgtgctccttggaggtgggaagagcaggcggaggacacgtgggaggttttagggacaagcctggaggcagcatgcgtcactcccatgcagagtccattggccaatgctggctccgatggccacat
ctcactgcaggggcagctgggaaatacagtctggctgtctacccaggaggaagagcagccagtttctgctgCTGATGATCAGGAGGTGGAGAAAATGTTCAGTCAGGCAGGGAGTGGGAATAGACAAGACCACAAGCAGCTTGGTGCCTCTGAAAGGGAGAGGGGTGGAGGGGAGACTAGAGAGGTGGGTAGGAATACTGGATTCCACTGACCACGTGCTGGATGTCACGCTTAGCCCTCCTGCTCTGTGCCGGGTTAGGCACCTGGTGTTTTACGTACATAATCTCAATTCTGTGAGGGCATCCGACCTGTGGGAAAAGAGCTGTTTGTTTCAAATGCCAGTCCTGCTTCCTAACAAGTGTTTAGAGCTTAATCGTGTTCAAAAtacatatacaatgtttaatacttacaagaatttggtggggaaaatattaccatctttcccttttgtgattggagaaaaatgaggctttgaagggtttaagaacttgcccaaggtcggccaggtgcagtggctcatgtctataatcccaacactttgggaggctgaggtgggaggatcgcttgaggccaggagttcaagaccagcctgagcaacatagtgagactttgtctctataaaaaataaataaataaataaaaaCAACTTGTCCAAGGTCAGACAGGCAGCCTCTTAGTAAGCACACATATCCTCTATATTATACTACCTCTCATGGAGGATCT-CCTGTGTTCTACAAATAGTCTGGACTTGAGCCAGAATGTGTTATA
+s panTro2.chr15_random 1999027 1707 - 3087076 ttgatggacatttgggttggttcaaagtctttgctattgtgaatagtaccacaataaacatacatgtgcatgtgtctttatagtagcacgatttataatcctttgggtatatacccTAAGACctgggacgcatttaaagcagtgtgtaaagagaaatttatagcactaaatgcccacaagagaCCTCTGCCTGAGAACGTGGGTTTCAGCCTAAGAGTTGTAATATGTGTGCCCATTCACAGGTGCTGCATCAGAGTCCCAGGTGGGAAGAAGGCAAGCATACACAAAAATGGTAAAAGGCAGAAAGGAGCCCAGTCTCATTCTTTCTAAGAAGTTTTCCTAAGAATCTCCACCCAGCGACTTGCTCTCACATCTTCTTGGCCAGCACTGGACCACACAACTCCTTCTAGATACACAGGAGTCCTAGGATTCTATGAGAAAGAAGGGGAGGGTGGGCAAAGGGCAGCCAGCTGTGCAGCATCTGCTGGAGACACCTAACCCTTGGTGGAGGGGTTGT-GTGCTGGgagaaggctttctggacggtgtgacagcagagataaacttaaaggccaagtaggagttaccctggtgaagcagggcagggttacaagcattccagcaacatgaagcagcaGGAGtgttttaattaaaagaaggcagttgctgtaaccaactataaacaaataaaggcttaaacacaatggaagtttatttctcactaagggaacatccaaatccatgatactttaagtcagggacccaggttcctcccatctatggttctgccatcactaatctgagtcttccacaattgccgtgctccttggaagtgggaagagcaggcggaggacacgtgggaggttttagggacaagcctggaggcagcatgcgtcactcccatgcagagtccattggccaatgctggctccaatggccacat
ctcactgcaggggcagctgggaaatacagtctggctgtctacccaggaggaagagcagccagtttctgctgCTGATGATCAGGAGGTGGAGAAAATGTTCAGTCAGGCAGGGAGTGGGAATAGACAAGACCACAAGCAGCTTGGTGCCTCTGAAAGGGAGAGGGGTGGAGGGGAGACTAGAGAGGTGGGTAGGAATACTGGATTCCACTGACCACGTGCTGGATGTCACACTTAGCCCTCCTGCTCTGTGCCGGGTTAGGCACCTGGTGTTTTGCGTACATAATCTCAATTCTGTGAGGGCATCCGACCTGTGGGAAAAGAGCTGTTTGTTTCAAATGCTACTCCTGCTTCCTAACAAGTGTTTAGAGCTTAATCATGTTCAacatacatatacaatatttaatacttacaagaatttggcggggaaaatattaccatctttcccttttatgattggagaaaaatgaggctttgaagggtttaagaacttgcccaaggtcggccaggtgcagtggctcatgtctataatcccaacactttgggaggctaaggtgggaggatcgcttgaggccaggagttcaagaccagcctgagcaacatagtgagactttgtctctataaaaaataaataaatAAATAAAAAGAACTTGTCCAAGGTCAGACAGGCAGCCTCTTAATAAGCGCACATATCCTCTATA-TATACTACCTCTCGTGGAGGATCTCCCTGTG-TCTACAAATAGTCTGTACTTGAGCCAGAATGTGTTATA
+
+a score=465064
+s hg18.chr1 25497 5098 + 247249719 ATCCTGGGATCACGGCCAGTGGGCTTAGAAGAAGCCATCTCTTTCTCATGCCAAGATGAGGCTCCCCCAGATTTGCTCAGACTTACCTATAGTCAGCAGCATCGGGGGTCAGGAAAGACTTCACGAAGCCATAAATGCATCCTTCTCGGGGCAGCACCTGGCTCTCCCAGGTGAGAGAGGACTCCATTTTCACAGGCAGGCGTGGGAGCTTCAGCACCCATCTCTGGGCCCAGAATGACCCACTGGAGACCTTACAGCTCTCCTGTCACCCCCAATTCCTGCCCCCTCTGCAGCCTTGGAGGAGAATGGAGCTGAAGGGCCTGCCCTCTGTAGGGTGAGAAAGGGAGGCTAAAGCCTGGTGCCCACTGCCCTGGCTGCTCCGCATTGCAGGAGCTGCGCCCTTCCTTTCCTGGCACAGGGTCCACAGCCCCGAAACCCCGTTGTGTGGGAGCTGGGCACAGGGCAGCAGGACTAATCCTTGGAACAGCTCAGGGAGGATTATCCCAGCCACTGTCAGCAGCGGTGCAGCTGGCTCATTCCCATATAGGGGGAGGCCAGAGCCAGGGGCCTGCCACAAGTTGGA--AGGCTGGGGAAGGGGAGGCCAGCAGAGGTGTCCTGGCTGTGGGTGGCTCTGAGGGGGCTCTCAGGGGTGGGGCTAAATCTCAGGGGCAGGATTATGTAAATCAAACCAATTCTAGCCACAGATTTAAAGTTTGG---AAAAAAAAAAAAACCCAGCCTGGCGGAAAGAATTTAAATTATAAAAACTTAGAAGTATGGAATGTGAAATCATCCTGTAGGTGCTTATTTAACAACGAAATCATCCCGACACAATGAGCCATATGTGAAAAGTCATCCTTCCCCAACACATCCCCCAACAGGCACTCCTCAAGCCTCTCCCACCCAAGTGCTGGCATCCTCCCTGTCCTGCTTCACCTGAGACACCC
CTTGTCTCATTAGACATGCAACTACGGGAGGGGTGACAGGAAGACAAGACACTATTTCCTCAGGCCCAGTTTGGTGTGGGGAGAAAGCCTCCTGATCCTGAAAGCAAGAATTTGACCAGAGCAGAAGTAATCAGTATGCAGATTGATTCTGTGGTATGTTAATGTTTATGCATAGATTATGAGGACCAGGTGAAAAGTGGGCCAGGGGAGCCAGATGTGTGTGTGAGTCATGGGTGGCTGAGATGAGGACAGGAGGGAAACTGGTTTGGAGGGTGCTGGCGATGGGGTGGGGGTGCCAGGAGGAAGGGAGGCTAGTTGTTTGAATGTCTGCATGAAAAAGCGGACGACAGCGGGGTCTGGGTGAATTCGGGCAACCATTTGGACCGTGGAGAAAACTGCCTGCGTGCGGCTGAGGACCTGCACTATTAATTTGTTTTTTAGCTAAGGCAAAGATAAATATAAAAACtgatactccacccagttaccagaaaacatttaggtatgtgtgagacaacttgggtatgtgaacctaccttttcaatgtaaattcagtgaaatctaagtgcagatcccatatttccaataaaaaggtaacatccaaactcagatgtcctatgagtataaaatacacaaagatcttctggacttagtatgaaaagggattttttttttgtcaggtacctcactagttatttttaaaataggattgcatgttgaaatgataatcttttggatatattgggttaaataaatttattattaaagttaatttcacttaaaaatgtttaatgtagctactagaaattttaaaattaagcatgttgctcaccttatgtttctattggacggctctCTCTAGATACAAAGGCTGCCAAGAGGGACCTCACTCTAGCTTCAGGGAGAAGAGAGGAATTAGCAAGGCCAAGCAGAGGCTCCTGAGGGCAGGGCCAAGGGCGGCTTGGTGGGGTGGGGATGGGATGCACAGAGAT
AACTCCAACCCTTAAGAAGGTGTTTCCTAGAGCAGGCTGTGACCTGTCAGTTTATATACTGAGGCTTAGGAGCCTCTTGGATGCCCCCAGATCTGCACCCCTGAATTGCCCTGTGCCCCTGCCGTCTTTGTTCCTGTGCTGGCATAGTGGTCTCACCTCCGGCAGtatcaccaccactgggcacaagcttctccagcacagcaactgtgtcttatttctccttgtactcccagtgttcacaccatgctgcactcacagaagactcttcgttgatattttgtggacagagagaatGCCTGTGAGAGTGGGCTGAAGTGTGCGTTGGGCTCCAGAGACCTTAAGGAGGGGAGACCAGGTCCTGAGTAAAGTTGAAGGGGAGGGGCTGAGTCCTGCTAGCCAGGAGTCTCATCCCCTGGGGAAGTTCCAGGGACCCCTCAGAAGTGCAAGGGGACGGTGTTAGTGTTAGTCCAGTAACACAGCCCAGAGCCTGCcttccacgtgggtttgacaggagcctcctaactgctcttctgcttccatttttgccccttcagtctattctcaacagggaagccagaggcatccttaaccatgtcagatcatgtggctcctcagctcaaagccTCATCTCAGAGGAAAGCTCTGGTCCCTTAGAAATGGCCCAAGTGGTGACAGACAGACTCTAAGGtgagcagactgttgctagatatctgggctcggaggactcgccactgctcaaaggcagtgaggattttcgcactagaagctggaggacagggatccttgttaggtaggagcagaaagcttagaaaagtggtctcctgcagttacgtggcaaacacatcatgtaagtgataaattgggtatgcagttgaggagatttccaagtaaaatgttgaggatgctgcctggtttcttcttactgcttataatatagtgtgagagaagagagataaattgagaaagagactggtttttaaactgttaaa
attgaatcaggacttgatgattttgaaaattgtcagtctccccacatggaaaaagatgctgaaattaacaaatggcttctgagcatgtggcatagggtgtaactgtacagtcttttgtgattatgcataaagatcaaaggatgggagtagcaatgagtcacacagaggtctgttgcaagagattacaagggtgtaccatgcagaacctctccaccaaaccttagggcccttgggaagcttcagtgagttaccctgggggccatcttggcaggagctgaaggtagaaaggtagagtttatctctaaaagattcatgggtatggctcttgacaaatcgactatgagccccaccgaaacccacagaggacaggcaaagggtttgggaaagctgtttcacccacagtgctggcagattggtctgtaggggacagagtgcaaaatgaaagaagactgtcagagaccccaaactctgctgtcaagaagaaggctgataaaactacttggctgcaaacacgtggatctttcgtgagaaaagaaggatgacccagaggcagaagcccagaaggcagagccaagagacatggaatcttcccacatcttaaaacctgtttagggaacaccagcatctgtccagctggatttcagaaccaccattccttcatccttcccctgctgcctctttctgaacagcaatgtctcaagctttacccaccattgtgtgttgcatatgtagggggcagatagcttgtatctttagttttccagatcagaggaacatccaaagaaatctgttctacacctaaacccgatttagatgagattcgggactgtgagcatgaagggatctcaagaggggtgaatgtgttttgcatgcacaagggacaggagtcttggggacagaggacaggctgtggtggcagatactaaggtgacccccacaacccccacctctgccattcacacccttgaataatccccttctctggttgt
aagcagaacctgtggcttgcttatgaaggaggcggtatatatgtgattcatgtactgatcatattgtataagatcactggctggatgcagtggctcgtgcctgtaatcccaacactttgggaggctgaggcgggtggatcacctgaggtcaggagttcgagaccaggctggccaacatggcaaaaccccgcctctactaaaaatacaaaaattagccaggcatagtggtgcacgcctgtaatcacagctactcaagaggctgaagcaggagaattgcttgaactcaggaggtggaggtggcagtgagccaagatcgtgccactgcactccagcctcagtgacagagcgagactctgtctcaaaaaataaataaataaaatgttaagatcataacctgtctttctggggactctctcttgacgcctttgaagaagcaggctgccatgttgcaagctgcctcatggaggggatcagctgcgaggagctaagagccccctccagtcgatgctcaccaggaagctgaggtcttgtgtccagcaccctgcatagaactgaatgctgccatgtgagcttggaagcagagccatccacacagctgagccctagatgagaacccagtgctggctgacaccctgatggcaccttacagaggaccagttaggctgtgccaactcctgacctgcagaagctggggaacactgggtcgtatttgcagctgctggatttgtgggaatttgtcacacagcaatTGGGAGTCACACAGCCTGTGACGCCCCAACAATCCACAcctcctgcatctccctgccttcacttcctagcacactgccctgactccctctgccgcagccacgctggccctctgctgttcttcgaagccaccagggctgcattggctcccagcctttgctctcactgctttctcctcctagagagcccttcctgcatgtatatgtttgactcactcccttgcctccttcagacttgtactt
aaaaatctcagtaagcatttccctggctacccttttaaaaattgcaacccacttccatccccatccccaacatgccatatttcctttcttcttcttccttcttcc--------tttttttttttttttttttgacacaggt----tctctgtcacccagcctggagtgcagtgacatgatctcggctcactgcaacctctgcctcccCAG
+s panTro2.chrUn 134455 5104 + 58616431 ATCCTGGGATCACGGCCAGTGGGCTTAGAAGAAGCCATCTCTTTCTCATGCCAAGATGAGGCTCCCCCAGATTTGCTCAGACTTACCTATAGTCAGCAGCATCGGGGGTCAGGAAAGACTTCATGAAGCCATAAATGCATCCTTCTCGGGGCAGCACCTGGCTCTCCCAGGTGAGAGAGGACTCCATTTTCACAGGCAGGTGTGGGAGCTTCAGCACCCATCTCTGGGCCCAGAATGACCCACTGGAGACCTTACAGCTCTCCTGTCACCCCCAGTTCCTGCCCCGTCTGCAGCCTTGGAGGAGAATGGAGCTGAAGGGCCTGCCCTCTGTAGGGTGAGAAAGGGAGGCTAAAGCCTGGTGCCCACTGCCCTGGCCGCTCTGCATTGCAGGAGCTGCGCCCTTCCTTTCCTGGCACAGGGTCCACAGCCCCGAAACCCCGCTGTGTGGGAGCTGGGCACAGGGCAGCAGGACTAATCCCTGGAACAGCTCGGGGAGGATTAT-CCAGCCACTGTCAGCAGCGGTGCAGCCGGCTCATTCCCAGATA-GGGGAGGCCAGAGCCAGGGGCCTGCCACAAGTTGGAAGAGGCTGGGGAAGGGGAGGCCAGCAGAGGTGTCCTGGCTGTGGGTGGCTCTGAGGGGGCTCTCAAGGGTGGGGCTAAATCTCAGGGGCAGGATTATGTAAATCAAACCAATTCTAGCCACAGATTTAAAGCTTGGAGAAAAAAAAAAAAAACCCAGGCTGGTGGAAAGAATTTAAATTATAAAAACTTAGAAGTATGAAATGTGAAATCATCCCGCAGGTGCTTATTTAACAACGAAATCATCCCGACACAACGAGCCATATGTGAAAAGTCCTCCTCCCCCGACACATCCCCCAACAGGCACTCCTCACACCTCTACCACCCAAGTGCTGGCATCCTCCCTGTCCTGCTTCACCTGAGACACCC
CTTGTCTCATTAGACATGCAACTATGGGAGGGGTGACAGGAAGACAAGACACGATTTCCTCAGGCCCAGTTTGGTGTGGGGAGAAAGCCTCCTGATCCTGAAAGCAAGAATTTGACCAGAGCAGAAGTAATCAGTATGCAGATTGACTCTGTGGTATGTTAATGTTTATGCATAGATTATGAGGACCAGGTGAAAAGTGGGCCAGGGGAGCCAGATGTGTGTGTGAGTCATGGGTGGCTGAGATGAGGACAGGAGGGAAACTGGTTCGGAGGCTGCTGGCGATGGGGTGGGGGTGCCAGGAGGAAGGGAGGC-AGTGGTTTGAATGTGTGCATGAAAAAGCGGAGGACAGCGGGGTCTGGGTGAATTCGGGCAACCATTTGGACCGTGGAGAAAACTGCCTGCGTGCGGCTGAGGACCTGAACTGTTAATTTGTTTTTTAGCTAATGCAAAGATAAATATAAAAACtgatactccatccagttaccagaaaacatttaggtatgtgtgagacaacttgggtatgtgaacctaccttttcaatgtaaattcagtgaaacctaagtacagatcccatatttccaataaaaaggtaacatccaaactcagatgtcctatgagtataaaatacacaaagatcttctggacttagtatgaaaagggatttttttttggtcaggtacctcactagttatttttaaaataggattgcatgttgaaatgataatcttttggatatattgggttaagtaaatgtattattaaagttaatttcacttaaaaatgtttaatgtagctactagaaattttaaaattaagcatgttgctcaccttatgtttctattggacagctctCTCTAGACACAAAGGCTGCCAAGAGGGACCTCACTCTAGCTTCAGGGAGAAGAGAGGAATTAGCAAGGCCAAGCAGAGGCTCCTGAGGGCAGGGCCAAGGGTGGCTTGGTGGGGTGGGGATGGGATGCACAGAAAT
AACTCCAACCCTTAAGAAGGTGTTTCCTAGAGAAGGCTGTGACCTGTCAGTTTGTATACTGAGGCTTAGGAGCCTCTTGGATGCCCCCAGATCTGCACCCCTGAATTGCCCTGTGCCCCTGCCATCTTTGTTCCTGTGCTGGCATAGTGGTCTCACCTCCAGCAGtatcaccaccactgggcacaagcttctccagcacagcaactgtgtcttatttctccttgtactcccagtgttcacaccatgctgcactcacagaagactcttcggtgatattttgtggacagagagaatGCCTGTGAGAGTGGGCTGAA------GTTGGGCTCCAGAGACCTTAAGGAGGGGAGACCAGGTCCTGAGTAAAGTTGAAGGGGAGGGGCTGAGGCCTGCTAGCAAGCAGTCTCATCCCCTGGGGGAGTTCCAGGGACCCCTCAGAAGTGCAAGGGAACAGTGTTAGTGTTAGTCCAGTAACACAGCCCAGACCCTGCcttccacgtgggtttgacaggagcctcctaactgctcttctgcttccatttttgccccttcagtctattctcaacagggaagccagaggcatccttaaccatgtcagatcatgtggctcctcagctcaaagccTCATCTCAGAGGAAAGCTCTGGTCCCTTAAAAATGGCCCAGGTGGTGACAGACAGACTCTATGGtgagcagactgttgctagatatctgggctcggaggactcgccactgctcaaaggcagtgaggattttcgcactagaagctggaggagagggatccttattaggtaggagcagaaagcttagaaaagtggtctcctgcagttatgtggaaaacacatcatgtaagtgataaattgggtatgcagttcaggagatttccaagtaaaatgttgaggatgctgcctggtttcttcttactgcttataatacagtgtgagagaagagagataaattgagaaagagactggtttttaaactgttaaa
attgaatcaggacttgatgattttgaaaattgtcagtctccccacatggaaaaagatgctgaaattaacaaatggcttctgagcatgtggcatagggtgtaactgtacagtcttttgtgattatgcataaagatcaaaggatgggagtagcaatgagtcacacagaggtctgttgcaagagattataagggtgtaccatgcagaacctctccaccaaaccttagggcccctgggaagcttcagtgagttaccctgggggccatcttggcaggagctgaaggtagaaaggtagagtttatctctaaaagattcatgggtatggctcttgacaaatcgactataagccccactgaaacccacagaggacaggcaaagggtttgggaaagctgtttcacccacagtgctggccgattggtctgtaggggacagagtgcaaactgaaagaagtctgtcagagcccccaaactctactgtcaagaagaaggctgataaaactacttggctgcaaacacgtggatctttcatgagaaaagaaggatgacccagaggcagaagcccagaaggcagagccaagagacatggaatattcccacatcttaaaacctatttagggaacaccagcatttgtccagctggatttcagaatcaccattccttcatccctcccctgctacctctttctgaacagcaatgtctcaagctttacccaccattgtgtgttgcatatgtagggggcagatagcttgtatctttagttttccagatcagaggaacattcaaagaaatctgttctacacctaaacccgatttagatgagattcgggactgtgagcatgaagggatctcaagaggggtgaatgtgttttgcatgcacaagggacatgagtcttggggacagaggacaggctgtggtggcagatactaaggtgacccccacaacccccacctctgccattcacacccttgaataatccccttctctggttgt
aagcagaacctgtggcttgcttatgaaggaggcggtatatatgtgattcatgtactgaccatattgtataagatcactggctggacgcagtggctcatgcctgtaatcccaacactctgggaggctgaggcgggtggatcacctgaggtcaggagtttgagaccaggctggccaacatggcaaaaccctgcctctactaaaaatacaaaaattagccaggcatagtggtgcacacctgtaatcacagctactcaagaggctgaagcaggagaattgcttgaactcaggaggtggaggtggcagtgagccaagatcgtgccactgcactccagcctcagtgacagagtgagactctgtctcaaaaaataaataaataaaatgttaagatcataacctgtctttctggggactctctc--gacgcctttgaagaagcaggctgccatgttgcaagctgcctcatggaggggatcagctgcgaggagctaagagccccctccagtcaatgctcaccaggaagctgaggtcttgtgtccagcaccctgcatggaactgaatgctgccatgtgagcttggaagcagagccatccacacagctgagccccagatgagaacccagtgctggctgacaccctgatggcaccttacagagaaccagttaggctgtgccaactcctgacctgcagaagctggggaacattgggtcgtatttgcagctgctggatttgtgggaatttgtcacacagcaatTGGGAGTCACACAGCCTGTGATGCCCCAACAATCCACAcctcctgcatctccctgccttcacttcctagcacactgccctgactccctctgctgtagccacgctggccctctgctgttcttcaaagccaccaggcctgcatcggctcccagcctttgctctcactgctttctcctcctagagagcccttcctgcatgtatatgtttgactcactcccttgcctccttcagacttgtactt
aaaaatctcagtaagcatttccctggctacccttttaaaaattgcaacccacttccatccccatccccaacatgccatatttcctttcttcttcttcCTTCTTCCTAtttttttttttttttttttttttttgacacaggttctctctctgtcacccagcctggagtgcagtgacatgatctcggctcactgcaacctctgcctccccag
+
+a score=356594
+s hg18.chr1 30595 3890 + 247249719 GCAagaaaaggggaggatgccaataaaggatgcattgatttgtatttactacagtggacatcaagggcacattcttgctgtggccatcaagagactgtataaattctatgacttgtagttgtcccacttaagaaacaaagaagctgtgcatttctttactggtctagagctgctctagggcattttctctacagcaattctaggtttccccaccttgtgagtttagctttttctatattcaaagaaaagtcctcagccagagattctcaggagctta-----tagaacaatccaaactcttgggaatattaagtggagaggggtacgtgcaagacaccaacagcACTAGAAACAGTCCACATCTTTCCATGCGTGGAGGAGTTTATGCTCTATGTGAGTTCACTCCATCATTAATTCTTCAAACACAAGAGTGTTAAAGGAACAAGAGTTAATGGGTCCTGTCATTACACTTGTTCCCAGGATGACATTCTTCATCTTCCTCTTCTACAACCTGTTCTATATTCCCCTCATGTTTATCCAGTGCTTCTGCTAGTCTAGTTCACTTCCAAAGACCCATGATTACCATGGCCCTGTCAGGCTGTAATTGCTGCAATTTCCAATTTACAATTGTCATCATCTATGGTTGATAAAGgtatagcaatatttctatttcctcatgataatgaaggtcaattacaactgccagtataataacttatttctttgtctgccaacctacatacacaaggaagccaaaatgacagggagctactaaaactttattcttattggaatgcttactatgtacccagaagaagcattctccctactccagcagagcttaatgctgtaggtccaggaagctcaaattctccaagggagttttagtgagaggagccactctcaccctctgcccttggtttacaaacctgtatattctaggaccca
atatcttacaatgtccattggttcaaagtataacatgttaaagcacagagccccaactctgaaaagtaccatccctaaattggcatttagttgcacctttatatccacctttaaaagaaatatcttttaatgttctatcagactgatagattctgtttaatatagtatattatagcaccagtggatcatttggttgtatgcatattattgtaccttctctgctacaaaatatattcctttgtcctaaggtgtgttacaaagaacattaggcattctatgcatctttggatagtttaatggccaagacattgatggcaggagagtcaaagccacaggtggaaaacacatttatcccagtaagaacaaattgctattcttccactgtagagagggtaaacaatgtgccattacgttgccaattgaatgcctcaatcatgtcaagggctgaacatctatgactgtttctgaaaggtcaaacattcaacagaggctgtagctagaactgccttaatgataagagatcatgctgaattacccatgcaaaaccttaatacttgacacttatcactactttattcaagagcctattgtgcaagcataagtggctgagTCAGGTTCTCAACTCTGCTCATTAATACTATGCTTGGAGTATACAGTAAGATAAGAAACATAAATAAGAAGTGTACATTTGTTTCTTCCTGTTTTCTTCTGGCTATTGGATCAATTACATCCCATCTTAAGCTGACCCCTGTGTAATTAATCAATATCCGTTTTAAGCAGCAATCCATAGTTGTGCAGAAATTAGAAAACTGACCCACACAGAAAAACTAATTGTGAGAACCAATATTATACTAAATTCATTTGACAATTCTCAGCAAAGTGCTGGGTTGATCTCTATTTACGCTTTTCTTAAACACACAAAATACAAAAGTTAACCCATATGGAATGCAATGGAGGAAATCAATGACATATCAGATCTAGAAACTAAT
CAATTAGCAATCAGGAAGGAGTTGTGGTAGGAAGTCTGTGCTGTTGAATGTACACTAATCAATGATTCCTTAAATTATTCACAATAAAAAAAAAGATTAGAATAG-TTTTTTTAAAAAAAAAGCCCAGAAACTAATCTAAGTTTTGTCTGGTAATAAAGGTATATTTTCAAAAGAGAGGTAAATAGATCCACATACTGTGGAGGGAATAAAATACTTTTTGAAAAACAAACAACAAGTTGGATTTTTAGACACATAGAAATTGAATATGTACATTTATAAATATTTTTGGATTGAACTATTTCAAAATTATACCATAAAATAACTTGTAAAAATGTAGGCAAAATGTATATAATTATGGCATGAGGTATGCAACTTTAGGCAAGGAAGCAAAAGCAGAAACCATGAAAAAAGTCTAAATTTTACCATATTGAATTTAAATTTTCAAAAACAAAAATAAAGACAAAGTGGGAAAAATATGTATGCTTCATGTGTGACAAGCCACTGATACCTATTAAATATGAAGAATATTATAAATCATATCAATAACCACAACATTCAAGCTGTCAGTTTGAATAGACaatgtaaatgacaaaactacatactcaacaagataacagcaaaccagcttcgacagcacgttaaaggggtcatacaacataatcgagtagaatttatctctgagatgcaagaatggttcaaaatatggaaaccaataaatgtgatatgccacactaacagaataaaaaataaaaatcatattatcatctcaatagatgcagaaaaagcattaacaaaagtaaacattctttcataataagacatcagataaaacaaattaggaatagaaggaatgtaccgcaacacaataaaggccatatataacaagcccacagctaacatcataatagtaaaatcatcacactggtaaaaaaaatgaaagcttttcctctaaggtcagaaataatataaaggttcccactcttgctat
ttctattccatatcgtactaaaagtcctagccaggacaattagacaaaataaaaataaaaacacccaaattggaaagatagaagcaaacttttctgtttacagataacataatcttatatgtagaaaccccttaaaacttcagcaaaaaaaaaaaaaaaactacagagctagtaaattcagtgaagttgcagaatacaaaatcaacatacaaaaatcagtagtgtctctatacactaataaggacttaacagagaaagaagttaagaaaacaataccactaacaatagaatccaaaaaataaaatacttaggaataaattttaccaaacatctgtacactaaaaactataaaacattgaaaaaagaagttgaataagacacatataaatagaaagctatctcatgttaatagattagaaaaagtaatattgttaagatgtcctcactacttaaagcaatttatagatctaatgcatttattgcaatctcttcaaaatcccaaaggtatttttgacagaaataaaaaaaaaattctaaaatatgcatgaaaccacaaaagactgtgaatagctaaagcaatcttgagcaagatgaacaacactggaagcatcacactaccttatttcaaaatctactacaaagctatagtgatcaaagcaacatgatactgtcataaaaacacacagataaacctatggaatggaataaagagcacagaaataagtccacacatttacattcaattgattttcaacaacaatgtcaagaagacaatggggaaaagacaatctcttcaataaatgatgctggaaaaactatatatccacatgcagaagaatgcagttgaatcctgatttcataccatatgcaaaattcaactggaaatggattaaatacaaatttaaaacatgaaatggtataactattagaacaaaacatagaaaatattcttcctgacattggtttgggc
+s panTro2.chrUn 9695081 3894 + 58616431 gcaagaaaaggggaggatgccaataaaggatgcattgatttgtatttactacagtggacatcaagggcacattcttgctgtggccatcaagagactgtataaattctatgacttgtagttgtcccacttaagaaacaaagaagctgtgcatttctttactggtctagagctgctctagggcattttctctacagcaattctaggtttccccaccttgtgagtttagctttttctatattcaaagaaaagtcctcagccagagattctcaggagcttagagtatagaacaatccaaactcttgggaatattaagtggagaggggtatgtgcaagacaccaacagcACTAGAAACAGTCCACATCTTTCCATGCATGGAGGAGTTTATGCTCTATGTGAGTTCACTCCATCATTAATTCTTCAAACACAAGAGTGTTAAAGGAACAAGAGTTAATGGGTCCTGTCATTACACTTATTCCCAGGATGACATTCATCATCTTCCTCTTCTACAACCTGTTCTATATTCCCCTCATGTTTATCCAGTGCTTCTGCTAGTCTAGTTCACTTCCAAAGACCCATGATTACCATGGCCCTGTCAGGCTGTAATTGCTGCAATTTCCAATTTACAATTGTCATCATCTATGGTTGATAAAGGTATAGCAATATTTCTATTTCCTCATGATAATGAAGGTCAATTACAACGGCCAGTATAATAACTTATTTCTTTGTCTGCCAACCTACATACACAAGGAAGCCAAAATGACAGGGAGCTACTAAAACTTTATGCTTATTGGAATGCTTACTATGTACCCAGAAGAAGCATCCTCCCTACTccagcagagcttaatgctgtaggtccaggaagctcaaattctccaagggagttttagtgagaggagccactctcaccctctgcccttggtttacaaacctgtatattctaggaccca
atatcttacaatgtccattggttcaaagtataacatgttaaagcacagagccccaactctgaaaagtaccatccctaaattggcacttagttgcacctttatatccacctttaaaagaaatatcttttaatgttctatcagactgatagattctgtttaatatagtatattatagcaccagtggatcatttggttgtatgcatattattgtaccttctctgctacaaaatatattcctttgtcctaaggtgtgttacaaagaacattaggcattctatgcatctttggatagtttaatggccaaggcattgatggcaggagagtcaaagccacaggtggaaaacacatttattccagtaagaacaaattgctattcttctactgtagagagggtaaacaatgtgccattatgttgccaattgaatgcctcaatcatgtcaagggctgaacatctatgactgtttctgaaaggtcaaacattcaacagaggctgtagctagaactgccttaatgataagagatcatgctgaattacccatgcaaaaccttaatacttgacacttatcactactttattcaagagcctattgtgcaagcataagtggctgagTCAGGTTCTCAACTCTGCTCATTAATACTATGCTTGGAGTATACAGTAAGATAAGAAACATAAATAAGAAGTGTACATTTGTTTCTTCCTGTTTTCTTCTGGCTATTGGATCAATTACATCCCATCTTAAGCTGACCCCAGTGTAATTAATCAATATCCATTTTGAGCAGCAATCCATAGTTGTGCAGAAATTAGAAAACTGACCCACACAGAAAAACTAATTGTGAGAACCAATATTATACTAAATTCATTTGACAATTCTCAGCAAAGTGCTGGGTTGATCTCTATTTACGCTTTTCTTAAACACACAAAATACAAAAGTTAACCCATATGGAAAGCAATGGAGGAAATCAATGACATATCAGATCTAGAAACTAAT
CAATTAGCAATCAGGAAGGAGTTGTGGTAGGAAGTCTGTGCTGTTGAATGTACACTAATCAATGATTCCTTAAATTATTCACAAT--AAAAAAAGATTAGAATACTTTTTTTTTTAAAAAAAGCCCAGAAACTAATCTAAGTTTTGTCTGGTAATAAAGGTATATTTTCAAAAGAGAGGTGAATAGATCCACATACTGTGGAGGGAATAAAATACTTTTTGAAAAACAAACAACAAGTTGGATTTTTAGACACATAGAAATTGAATACGTACATTTATAAATATTTTTGGATTGAACTATTTCAAAATTATACCATAAAATAACTTGTAAAAATGTAGGCAAAATGTATATAATTATGGCATGAGGTATGCAACTTTAAGCAAGGAAGCAAAAGCAGAAACCATGAAAAAAGTCTAAATTTTACCATATTGAATTTAAATTTTCAAAAACAAAAATAAAGACAAAGTGGGAAAAATATGTATGCTTCATGTATGACAAGCCACTGATACCTATTAAATATGAAGAATATTATAAATCATATTAATAACCACAACATTCAAGCTGTCAGTTTGAATAGACaatgtaaatgacaaaactacatactcaacaagataccaacaaaccagcttcgacagcacgttaaaggggtcatacaacataatcgagtagaatttatctctgagatgcaagaatggttcaaaatatggaaatcaataaatgtgatatgccacactaacagaataaaaaataaaaatcatattatcatctcaatagatgcagaaaaagcattaacaaaagtaaacattctttcacaataagacatcagataaaacaaattaggaatagaaggaatgtaccgcaacacaataaaggccatatataacaagcccacagctaacatcataatagtaaaatcatcacaatggtaaaaaaaatgaaagcttttcctctaaggtcagaaataatataaaggtgcccactcttgctat
ttctattccatatagtactaaaagtcctagccaggacaattagacaaaataaaaataaaaacacccaaattggaaagatagaagcaaacttttctgtttacagataacctaatcttatatgtagaaaccccttaaaacttcagaaaaaaaaaaaaacaaactacagagctagtaaattcagtgaagttgcagaatacaaaatcaacatacaaaaatcagtagtgtctctatacactaataaggacttaacagagaaagaagttaagaaaacaataccattaacaatagaatccaaaaaataaaatacttaggaataaattttaccaaacatctgtacactaaaaactataaaacactgaaaaaagaagttgaataatacacatataaatagaaagctatctcatgttaatagattagaaaaagtaatattgttaaaatgtcctcactacttaaagcaatttatagatctaatgcatttattgcaatctcttcaaaatcccaaaggtattttttacagaaataaaaaaaaaattctaaaatatacatgaaaccacaaaagactgtgaatagctaaagcaatctagagcaagatgaacaacactggaagcatcacactaccttatttcaaaatctactacaaagctgtagtgatcaaagcaacatgatactgtcataaaaacacatagataaacctatggaatggaataaagagcacagaaataagtccacacatttacattcaattgattttcaacaacaatgtcaagaagacaatggggaaaagacaatctcttcaataaatgatgctggaaaaactatatatccacatgcagaagaatgcagttgaatcctgatttcataccatatgcaaaattcaactcgaaatggattaaatacaaatttaaaacatgaaatggtataactattagaacaaaacatagaaaatattcttcctgacattggtttnnnc
+
+a score=9778
+s hg18.chr1 34485 118 + 247249719 catcatttttctgatatgactctaaaagcacaggcaaaaaaagaaaaaatagacaaatgagactatgccaaattaaaaaatttctaacaacaaaagaaacgatcaatagagtgaaaaa
+s panTro2.chrUn 9699210 118 + 58616431 catcatttttctgatatgactctaaaagcacaggcacaataagaaaacatagacaaatgagactatgccaaattaaaccttttctaacaacaaaagaaacgatcaatagagtgaaaaa
+
+a score=709815
+s hg18.chr1 34612 7875 + 247249719 ttgaatgggagaaatatttgcaaactactcatccaaccggggattgatatccagaatatacaagtaacacaaatatgtcaaaagtaaa-------ataaataaataaataaataaataaataaattaaataaattatttaaaaatcggcagaggacaggaatagacatttctcaggagacaacatacaaagggccacagatacatcaaaaaatgctcaacatcactatttgtcagggaagtactaattaaaaccaaaatgagatgtcccctcaaacctgttagaatggctattatcaaaaagatgaaagatagcaactatcagagaggatgatagaaaagggaacccttgcatcatgtacaaattaaaaatagaactatcacatgatccaagaatcctacttctgggtatatagccaaaggaattgaaatcaatatgtcaaagggatatctgcactcctatgttattgcagcatgttcacaatggccaagatatagaatcaacctaactgttcatagacagatgaatggataaatgaaatgtgatatggaaaattattcagccttaaaaacagtaggaaattctgtcatttgagacaacgtggatgaacctagaggacattaagctaagtgaaataagctagacacagaaagacaaatattgcatgatctcacttagaatctaaaaaatctgaactcatagaagcagagaatagtatgatggttactagggttatctggcagggagaggatgaggaaatgggacattgttaataaaaggaaaaaaa-ttcaattagtaggattacattcaggggacccaatatacgacatgttgactgtaattaataatgtattgtatgcttgaaaattgctaatacagtatattgtaaatgttaatatgaggtaatatatgtgttaattaacttgatttattcattcaacaacatac
acatatattaaaacatcacactgtattccacaaatatatataatttttgtcaattaaaaaaTAATTTTTAAAAATGAGAAACAAAAAAGCTGACATTTTCAGATTAAAAAAATTATACAGAAGAATTAATTCATTAAAGTAAAAACAAATGTGGGAAAATGGTTTTTAAATATAATTTAAACCAAATTTAAAATAAGCATATaaagactatggacaaaacaagaaatccaaataaaaaataaacatatgaagaatattcaaactcactttttatcaaagaaatgtaaattTTAAAATATAGCATTGCTATTGTGTTTTCATAAATAATAATATATCATGGATGAGCCTGTGAGGAAACAGACACTCATACTCTGCAAAGCAATGACTAAgataattatgtcagatcatgaattacgttaattagcttgatggtggtcactgtttcacgataaatatacatatgtatcaaaacatcacattacacaccataaagatatataacttgttatCAAAAAGAAATATAGCAGttaaaatttaaaatttttaaaaaaCGTCTTTTTGAGGTTCGTACCTCACTTAAGTCACACTGTTCAAAATATTCATGCACTCATTTCTCTCATTCATGTGTTAATGTACAGGGTACGGGCCACTATAAATTCCTTCAGCAACTGGAAAGGAAACTTTATGTACTGAGTGCTCAGAGTTGTATTAACT-TTTTTTTTTTTTtgagcagcagcaagatttattgtgaagagtgaaagaacaaagcttccacagtgtggaaggggacccgagcggtttgccCAGTTGTATTAACTTCTAATTCAACACTTTAAGATTCTTAGCATTATTGCAGACAACATcagcttcacaagtgtgtgtcctgtgcagttgaacaagatcccacacttaaaaggatcctacactttttttaatgctctgctgtttctgccttgaaattcttaacaatttttttaaccaaagtcct
cacaaattcagtttacattagccctgcaatcatgtagacatcctgATTCCAGACAATGTGTCTGGAGGCAGGGTTTACAGGACTTCAAGAACCTTACCTTCTCAACTTTCATCTGCATCTTTACTCCCAACTATATATGAAGATGATGAAGATAGATATGGATGGTGCTTCTACCATACCCTCTTCCTCTGCCAAACTTCCTTGATCTAGGATAAggtcagtaaacttcttccgtaaaaggccaaaagtaaatattataggctctacaggccctagagtgtctgtcataactactcaactctt--attgtagcataaaaactgtcaacagacaatacagaaacaaatgagtgtgactgggttccagtgaaactttatttacaaaagatttgtcccatgagtcaaatttaccacctccAGATCTAGAGAAACAGTTTTGAGCCCTTTTATTTTGCTCAACAGTTAAGCATGGCTCCATGTCCCTTATATTTAGTCAGAACTCGGTATGTTTTAAGGAAAGAATGGTTACACGAAGACATACATTCATTCATTTATACAACACATTTTCAGTGTTGAATGATAAATTTTGGAATAGTTAACAGATGATAAAAGTGTTGTTTTCAGTCATCCCTATCCAATGAAGTAAAAAAAAAA-GTGTTGAATGGGAAGAAATCAAGAATAGTTATACGAATATCACCATTGCATTAAAGCTCTCTTCCTTGTTTCTAAAAGAATATCTTGACACACATTAAGCTCACTGACCCCCACACCATGAATGAGGGCATCTTCAACAATGGTGGATGACGTCTTAGTTTCCCTCAACTCAGTTAATCTAAGTAAGCTCATGGTATCACTTTCCTGTCCTAGAGGGAACATATTTCCTGCATTTTTCTTTTTTT-CCTTACTTTCCATCACCAAGTAACTCTTCTGATATTTTTTCTCTTGAGAAAATTAATATGACTCATAGATCTGGTTCCCAAGAGAAATC
AATGGAGGCCTGGTTACAAGGATCTAAGAAGCATCAATGGGTCACTAACATCTAGTGGTACTAATTAACTCTGTTAATCATTGGGAAGAAAATGTATATATACTTTTGTCTTGGAGCTGATTCTACTAGAAAGCAGAAATCAAAA-TGATCAGTTTCCCAGTGTCACTACTGCACACCCTGGAACAGAACAGGTAGGTCAGAAAAACGCTCCCAAAGTTTAGCAATGTCAAGGCAATCTCTCTCTTCTTACATTTCCCTTCAACCTTCTATCTCCTCCACTTTTCTGTTTTCCTCCTATCTCCAATTATTTCAATCCTCAGAGCATTATTCTTACAATCTTAATCACTAAATTATATTACACCCGTTAAAGGAGAGATTTCTAAATGCATTGACATTTGTACTGTCTCTCTTTGGAGAATTAGTATTATAAGGATCTGTTATCTCTTGTCACCTTCCTTATGTCATATGATATGTCACATTTCCCACTGCGGAGACCAAACATGTTCACATCGTGTGCGTTCCATTTTCCTAATGGAAAGTGGGGGGAAGTGATTTTCTGTCCTCATATAGAGAATGCTGGGGCCATTCCCTCTGTATGCCATATTTGATAAAGCATTTGATAATCTTAGTCAATGCCTGGGCCAAGAATTAAAGGGGTAATTATCAGAATGAAAATGGTTTAATGAAACTGTGTCTATCAGTTCTGAAAAGGGCCTCTATCACAATGAACTAAGGTAGTTATGAATAGAGCTAAaacttaggcaacaccatcctggacataggaacgggcaaagatttcatgacaaagacacggaaaccaatcacaacaaaagcaaaaattgagaagtggaatctaataaaacaatagcttctgcacagcaaaagaagctaccaacaaagtaaacagacaacctacagaatgggagaaaatatttgccaactgtaagtctgacaaaaatctaatatctggcagctataaggaacttaa
atttacaagacaaaaacaaccccattaaaaagtgggcaaagaacatgaatagacactctcaaaagaagatatacatatggttaacaagcatatgaaaaaaaagctcaatatactgagcattagagaaatgcaaatcaaaaccatattgagatatcatctcataccaggcagaatggctattattaaaaagtcaaaaataacagatatcggtgaggttacagagaaaagggaacacttatacactgttggtgggactgtaaattatttcaaccattgtggaaagcagtatgggatggcgattcctcaaaaagccaaaaacagaactatcattcaacccagcaattccattactgggtatatacccagaagaatataaatcgttctaccataaagacgcatgcatgagaatgttcattgcagcactactcacaatagcagagacatggaatcaacttaaatgcccatcagtaacagactggataaagaaagtgtggtacagatacaccgtggattactatgcagccataaaaaagaacaagatcatgtctttgacaggaacatggatggagctggaggctactatccttagcaagctaaggcaggaacagaaatccaaataccgcatgttctcacttatgagcgtgagataaatgatgagaacttgtaaacacaaagaaggaaacaacaggcagtggggtctacttgaggacgacgggaagagggagaggagcagaaaagataactactgactaccgggcgctacctgggggatgaaacaatctgtacaacgaacccccaggacatgagtttacctatgtaacaaaccttcacgtgtacccccgaacctaaaataaaagtcaaaaagaaaAAGAAAA------AAAGAAAAATCCATGCATATGATACATCAGTTAACAAGGCACTGGTGAAATTAATTTTAAGTATTATTGTCTCTTTGTGTTTTTGGTCTCAGAAAAGTTACGATTTCC
CTTAGTTCCTTAGGGCAGAGAGAATCTTCAATCACTGAAGTCAGGAGACACACATTCTATCTGATTTTCTACATTATCTGTTTGAAAAGGTTACCCACTTATTAGTGTTAAAGCCAAGATATCCAGCAAGGATAGCAACCAACTCTTAAGGTACTCTCCCTTAGGAGGATTCCTGATTCTTTAATGTTTTCTAAAAAAGCAAAACAAA----CAAACAAACAAAACAAAACACTAAATGTTTTCTCTTTCAACTTATTTGAATACACTCTTTTCTCACTGCTCTGAGCATGAATTCAATATTTCAGGGCAAACTAACTGAATGTTAGAACCAACTCCTGATAAGTCTTGAACAAAAGATAGGATCCTCTATAAACAGGTTAATCGCCACGACATAGTAGTATTTAGAGTTACTAGTAAGCCTGATGCCACTACACAATTCTAGCTTTTCTCTTTAGGATGATTGTTTCATTCAGTCTTATCTCTTTTAGAAAACATAGGaaaaaattatttaataataaaatttaattGGCAAAATGAAGGTATGGCTTATAAGAGTGTTTTCCTATTGTTTTCAGTGTAGGACTCACTGTTCTAAATAACTGGGACACCCAAGGATTCTGTAAAATGCCATCCAGTTATCATTTATATTCCCTAACTCAAAATTCATTCACATGTATTCATTTTTTT-CTAAACAAATTAGCATGTAGAATTCTGGTTAAAATTTGGCATAGAACACCCGGGTATTTTTTCATAATGCACCCAATAACTGTCATTCACTAATTGAGAATGGTGATTTAACAAAGGATAATAAAGTTATGAAACCAATGCCACAAAACATCTGTCTCTAACTGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtAAGAGGGAGAGAGAGAAAATTTCACTCCCTCCATAAATCTCACAGTATTCTTTT-CTTtttcctttcctttccttgctcttctttctctcctattgctttcctt
tcatttccttCTCATAAAAGAAAAATAACAATATAGAAAATAACAAAATATAGATGGTCAACCTTTTTAATATTAAGGTTACCTAAAATGCCATTATCCAAAGTGGTTCTCTAGAGATGCTGATGTATATACTTACATATTTTACAGTGTATTCAAATAAAGAGTATATTACATAAGACATATCCTTTTGTAACCAACTTTTGTCATTAACAATTTACTGGACTTGTCAACAAACCTAAATCTGTATCGTCTATAATGGCTACGTTCATTTTGGTATGAATCTTAATTACCCCTTTCTGCATTATTTAATGATTTTCTCATATGTCACTCTTAAATGTACTTCTAATTTTTCACTTTACATCACATAATGAATGGATCCAAATATGTTATGGATAGATATCTTCAAACTTTCTACTTACAAGTAGTGATAATAACAGATGTTCTCTCTAAAGTGTAGTTGGTATCAATTTTACTGACCTTTAAAAATATCTTAATGGGACAAAGTTCAAATATTTGATGACCAGCTATCGTGACCTTTATCTCTGTGGCTCTGTGGGCCTGTAGTTTTTACGTGCTTTTAGTGTATCATGATTAAATATTTTGTTTTAGTAAAGACACCATTATTTCCCAACTTCATATTCAAATTGTCAAAGGTATTAATCCTAGAGCAGAACTCTCAAAAGCACCAACTCTGATTCCTAACAAAGCATGGAAAAGCCCTCTCTCTGAGTTTCAGATACTCTTTTTTGTGGGGGTTGAGTTTCACTTTATTTAAAGTGAGTCTTAATCCTCCAACAAGTCAACAAGTGATTGGCTGGAATCACACGTATTGGAAAACCAGCGGAAGAGTAAGTCTTTGTATTTTATGCTACTGTACCTCTGGGATTAATTGCTCTTTCCCTCATTGGCCAGTCACTCTT-AGTGTGTGATTAATGCCTGAGACTGTGTGAAGTAAGAGATGGATCAGAggccgggcgcgggggctcgc
gcctgtcatcccagcactttgggaggccgaggcgggcggatcacgaggtcaggagatcgagaccatcctggctaacacggggaaaccccgtctccactaaaaatacaaaaagttagccgggcgcggtggcgggcgcctgcggtcccagctgctggggaggccgaggcgggagcatggcgggaaccgggaggcggagcctgcagtgagccgagatggcgccaccgcactccagcctgggcgacccagcgagactccgcctcaaaaaaaaaaaaagaaGATTGATCAGAGAGTACCTCCCCTAAGGGTACATGCAGATAAATACAGTTAAGGCGATTAACATTTCAAATAC-GGTGACTGTTTCTTACGTGGACGACGTTGTGTTGAACATGGGTGAGTAAGACTGAAGCAGCCGTAATTACTGCACGATGCGCATGGTAAAGAAGCACTCCGTTAGGGAAATTATATTCTTTGCCCCTCTAATCCTTCACTCCACCTGCCATATTCCCACATGATTTTTTTCTTTGCTGTTCTTGTCTAATTGttattaataattaataaataaCTTATGATCTAATTGTTATTAA----TAATAACTTATCATCACATGatttattaataaattaataaataacttattatCACCGCATTTCCCCAATTCATTTATCTTTCTTTCATTTTCTCTCTTTGTGTGTTTTCTGTCTTCATATTTCAGCACTTGCCACATATTTCCCACAAAATCATTTATGGTCAAACAACACTTCAACGTGTAGCATTTGTATTTCTCAATTCTTCCTCACTTTCTTCCTTCAGAATACTAAAGCTTCTTCTCTACTGACTGAGTCAATGGCCAATGGATAGAGTAAATAATTCTGCGGTATCTAAATTTGTATTGATTGGACTTTCAAGCTCTTGGGAGATGCATCTTTTTCTTTTTTGGTTCTTCTCTGTGTTCTACATGGGAATTATCCTGGAAAATCTCTTCATTGT
GTTCACAGTAATTATTGACTCTCATTTAAATTCCCC
+s panTro2.chrUn 9699336 7904 + 58616431 ttgaatgggagaaatatttgcaaactactcatccaactggggattgatatccagaatatacaagtaacacaaatatgtcaaaataaaataaataaataaataaataaataaataaataaataaataaaataaattatttaaaaatcggcagaggacaggaatagacatttctcaggagacaacatacaaagggccacagatatatcaaaaaatgctcaacatcactatttgtcagggaagtactaattaaaaccaaaatgagatgtcccctcaaacctgttagaatggctattatcaaaaagatgaaagatagcaactatcagagaggatgatagaaaagggaacccttgtatcatgtacaaattaaaaatagaactatcacatgatccaagaatcctacttctgggtatatagccaaaggaattgaaatcaatatgtcaaagggatatctgcactcctatattatggcagcatgttcacaatggccaagatatagaatcaacctaactgttcatagacagatgaatggataaatgaaatgtgatatggaaaattattcagccttaaaaatagtaggaaattctgtcatttgagacaacgtggatgaacctagaggacattaagctaagtgaaataagctagacacagaaagacaaatattgcatgatctcacttagaatctaaaaaatctgaactcatagaagcagagaatagtatgatggttactagggttatctggcagggagaggatgaggaaatgggacattgttaataaaaggaaaaaaaattcaattagtaggaatacattcaggggacccaatatatgacatgttgactgtaattaataatgtattgtatgcttgaaaattgctaatacagtatattgtaaatgttaatatgaggtaatatatgtgttaattaacttgatttattcattcaacaacatac
acatatattaaaacctcacactgtattccacaaatatatatactttttgtcaattaaaaaaTAATTTTTAAAAATGAGAAACAAAAAAACTGACATTTTCCGATTAAAAAAATTATACAGAAGAATTAATTCATTAAAGTAAAAACAAATGTGGGAAAATGGTTTTTAAATATAATTTAAACCAAATTTAAAATAAGCATATaaagacaatggacaaaacaagaaatccaaataaaaaataaacatatgaagaatattcaaactcactttttatcaaagaaatgtaaattttaaaatatagcattgctattgtgttttcataaataataatatatcatggatgagcctgtgaggaaacagacactcatactctgcAAAGCAATGACTAAgataattatgtcagatgatgaattatgttcattagcttgattgtggtcactgtttcatgataaatatacgtatgtatcacaacatcacattacacaccataaagatatataacttgttatCAAAAAGAAATATAGCAGttaaaatttaaaattttttaaaaatCTCTTTTTGAGGTTCGTACCTCACTTAAGTCACGCGGTTCAAAATATTAATGCACTCATTTCTCTCATTCATGTGTTAATATACAGGGTACGGGCCATTATAAATTCCTTCAGCAACTGGAAAGGAAACTTTATGTACTGAGTGCTCAAAGTTGTATTAACTATTTTTTTTTTTTtgagcagcagcaagatttattgtgaagagtgaaagaacaaagcttccacagtgtggaaggggacctgagcggtttgccCAGTTGTATTAACTTCTAATTCAACACTTTAAGATTCTTAGCATTACTGCAGACAACAccagcttcacaagtgtgtgtcctgtgcagttgaacaagatcccacacttaaaaggatcctacactttttttaatgctctgctgtttctgccttgaaattcttaacaatttttttaaccaaagtcct
cacaaattcagtttacattagccctgcaatcatgtagacatcctgATTCCAGACAATGTGTCTGGAGGCAGGGTTTACAGGACTTCAAGAACCTTACCTTCTCAACTTTCATCTGCATCTTTACTCCCAACTATATATGAAGATGATGAAGATAGATATGGATGGTGCTTCTACCATACCCTCTTCCTCTGGCAAACTTCCTTGATCTAGGATAAggtcagtaaacttcttccgtaaaaggccaaaagtaaatatcatagactctacaggccctagagtgtctgtcataactactcaactcttttattgtagcataaaaactgtcaacagacaatacagaaacaaatgagtgtgactgggttccagtgaaactttatttacaaaagatttgtcccatgagtcaaatttgccacctccAGATCTAGAGAAACACTTTTGAGCCCTTTTATTTTGCTCAACAGTTAACCATGGCTCCATGTCCCTTACATTTAGTCAGAACTCAGTATGTTTTAAGGAAAGAATGGTTACACGAAGACATACATTCATTCATTTATACAACACATTTTCAGTGTTGAATGATAAATTTCGGAATAGTTAACAGACGATAAAAGTGTTGGTTTCAGTCATCCCTATCCAATGAAGTAAAAAAAAAAAGTGTTGAATGGGAAGGAATCAAGAATAGTTATATGAATATCACCATTGCATTAAAGCTCTCTTCCTTGTTTCTAAAAGAATATCTTGACACACATTGAGCTCACTGCCCCCCACACCATGAATGAGGGCATCTTCAACAATTGTGGATGACATCTTAGTTTCCCTCAACTCAGTTAATCTAAGTAAGCTCATGGTATCACTTTCCTGTCCTAGAAGGAACATATATCCTGCATTTTTCTTTTTTTTCCTTACTTTCCATCACCAAGTAACTCTTCTGATATTTTTTCTCTTGAGAAAATTAATATGACTCATAGACCTGGTTCCCAAGAGAAATC
AATGGAGGCCTGGTTACAAGGATCTAAGAAGCATCAATGGGTCACTAACATCTAGTGGTACTAATTAACTCCGTTAATCATTGGGAAGAAAATGTATATATACTTTTGTCTTGGAGCTGATTATACTAGAAAGCAGAAATCAAAAGTTATCAGTTTCCCAATGTTACTACTGCACACCCTGGAACAGAACAGGCAGGTCAGAAAAATGCTCCCAATGTTTAGCAATGTCAAGGCAATCTCTTTCTTCTTACATTTCCCTTCAACCTTCTATCTCTTCCACTTTTCTGTTTTCCTCCTATCTCCAATTATTTCAATCCTCAGAGCATTATTCTTACAATCTTAATCACTAAATTATATTACGCCCGTTAAAGGAGAGATTTCTAAACGGATTGACATTTGTACTGTCTCTCTTTGGAGAATTACTATTATAAGGATCTGTTATCTCTTGTCACCTTCCTTATGTCATATGATATGTCACATTTCCCACTGCGGAGACCAAACATGTTCACATCGTGTGCATTCCATTTTCCTAATGGAAAGTGGGGGGAAGTGATTTTCTGTCCTCATATAGAGAATGCTGGGGCCATTCCCTCTGTATGCCATATTTGATAAAGCATTTGATAATGTTAGTCAATGCCTGGGCCAAGAATTAAAGGGGTAATTATCAGAATGAAAATGGTTTAATGAAACTGTGTGTATCAGTTCTGAAAAGGGCCTCTATCACAATGAACTAAGGTAGTTATGAATAGAGCTAAaacttaggcaacaccatcctggacataggaacgggcaaagatttcatgacaaagacacgaaaaccaatcacaacaaaagcaaaaattgagaagtggaatctaataaaacaatagcttctgcacagcaaaagaagctaccaacaaagtaaacagacaacctacagaatgggagaaaatatttgcaaactataagtctgacaaaaatctaatatctggcagctataaggaacttaa
atttacaagacaaaaacaaccccattaaaaagtgggcaaagaacacgaatagacactctcaaaagaagatatacatatggttaacaagcatatgaaaaaaaagctcaatatactgagcattagagaaatgcaaatcaaaaccatgttgagatatcatctcacaccaggcagaatggctattattaaaaagtcaaaaataacagatactggtgaggttgcagagaaaagggaacacttatacactgttggtgggactgtaaattatttcaaccattgtggaaagcagtatgggatggcgattcctcaaaaagccaaaaacagaactatcattcaacccagcaattccattactgggtatatacccagaagaatataaatcgttctaccataaagacgcatgcatgagaatgttcattgcagcactgctcacaatggcagagacatggaatcaacttaaatgcccatcagtaacagactggataaagaaaatgtggtacagatacaccgtggattactatgcagccataaaaaagaaccagatcatgtctttgacaggaacatggatggagctggaggctattatccttagcaaactaaggcaggaacagaaatccaaataccagatgttctcacttatgagcgtgagataaatgatgagaacttataaacacaaagaaggaaacaacaggcattggggtctacttgaggacgatgggaagaggcagaggagcagaaaagataactattgactactgggcgctacctgggggatgaaataatctgtacaacgaacccccaggacatgagtttacctatgtaacaaaccttcacatgtacccccgaaactaaaataaaagtcaaaaaaaaaAAAAAAAGAAAAAAAAGAAAAATCCATGCATATGATACATCAGTTAACAAGGCACTGGTGAAATTAATTTTAAGTATTATTGTCTCTTTGTGTTTTTGGTCTCAGAAAAGTTAGGATTTCC
CTTAGTTCCTTAGGGCAGAGAGAATCTTCAATCACTGAAGTCAGGAGACACACATTCTATCTGATTTTCTACATTATCTGTTGGAAAAGGTTACCCACTTATTAGTGTTAAAGCCAAGATATCCAGCAAGGATAGCAACCAACTCTTAAGGTACTCTCCCTTAGGAGGATTCCTGATTCTTTAATGTTTTCTAAAAAAGCAaaacaaataaacaaacaaacaaaACAAAATACTAAATGTTTTCTCTCTCAACTTATTTGAATACACTCTTTTCTCACTGCTCTGAGCATGAATTCAATATTTCAGGGCAAACTAACTGAATGTTAGAACCAACTCCTGATAAGTCTTGAACAAAAGATAGGATCCTCTATAAACAGGTTAATCGCCACGACATAGTAGTATTTAGAGTTACTAGTAAGCCTGACGCCACTACACAATTCTAGCTTTTCTCTTTAGGATGATTGTTTCATTCAGTCTTATCTCTTTTAGAAAACATAGGaaaaaattatttaataataaaatttaattGGCAAAATGAAGGTATGGCTTATAAGAGTGTTTTCCTATTGTTTTCAGTGTATGACTCACTGTTCTAAATAACTGGGACACCCAAGGATTCTGTAAAATGCCATCCAGTTATCATTTATATTCCCTAACTCAAAATTCATTCGCATGTATTCATTTTTTTTCTAAACAAATTAGCATGTAGAATTCTGGTTAAAATTTGGCATAGAACACCCGGGTATTTTTTCATAATGCACCCAATAACTGTCATTCACTAATTGAGAATGGTGATTTAACAAAGGATAATAAAATTATGAAACTAATGCCACAAAACATCTGTCTCTAACTGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtAAGAGGGAGAGAGAGAAAATTTCACTCCCTCCATAAATCTCACAGTATTCTTTTTCTTtttcctttcctttccttgctcttctttctctcctattgctttcctt
tcatttccttCTCATAAAAGAAAAATAACAATACAGAAAATAACAAAATATAGATGGTCAACCTTTTTAATATTAAGGTTACCTAAAATGCCATTATCCAAAGTGGTTCTCTGGAGATGCTGATGTATATACTTACATATTTTACAGTGTATTCAAATAAAGAGTCTATTACATAAGACATATCCTTTTGTAACCAACTTTTGTCATTAACAATTTACTGGACTTGTCAACAAACCTAAATCTGTATCATCTATAATGGCTACGTTCATTTTGGTATGAATCTTAATTACCCCTTTCTGCATTATTTAATGATTTTCTCATATGTCACTCTTAAATGTACTTTTAATTTTTCACTTTAGATCACATAATGAATGGATCCGAATATGTTATGGATAGATATCTTCAAACTTTCTACTTACAAGTAGTGATAATAACAGATGTTCTCTCTAAAGTGTAGTTGGTATCAATTTTACTGACTTTTAAAAACATCTTAATGGGACAAAGTTCAAATATTTGATGACCAGCTATCGTGACCTTTATCTCTGTGGCTCTGTGGGCCTGTAGTTTTTACGTGCTTTTAGTGTATCATGATTAAATATTTTGTTTTAGTAAAGACACCATTATTTCCCAACTTCATATTCAAATTGTCAAAGGTATTAATCCTAGAGCAGAACTCTCAAAAGCACCAACTCTGATTCCTAACAAAGCATGGAAAAGCCCTCTCTCTGAGTTTCAGAGACTCTTTTTTGTGGGGGTTGAGTTTCACTTTATTTAAAGTGAGTCTTAATCCTCCAACAAGTCAACAAGTGATGGGCTGGAATCACACGTATTGGAAAACCAGCAGAAGAGTAAGTCTTTGCATTTTATGCTACTGTACCTCTGAGATTAATTGCTCTTTCCCTCATTGGCCAGTCACTCTTAAGTGCGTGATTAATGCCTGAGATTGTGTGAAGTAAAAGATGGATCAGAggctgggcgcggtggctcgc
gcctgtaatcccagcactttgggcggccgaggcgggcggatcacgaggtcaggagatcgagaccatcctggctaacaccgtgaaaccccgtctccactaaaaatacaaaaaattagccgggcgcggtggcgggcgcctgtggtcccagctgctggggaggctgaggcaggagaatggcgggaacccggaggcggagcctgcagtgagccgagatggcgccaccgcactccagcctgggggacccagccagactccgcctcaaaaaaaaaaaaaaaaGATTGATCAGAGAGTACATCCTCTAAGGGTATATGCAGATAAATACAATTAAGGCTATTAACATTTCAAATACGGGTGACTGTTTCTTACGTGGACGACGCTGTGTTGAACATGGGTGAGTAAGACCGAAGCAGCCGTAATTACCGCACGATGCGCATGGTAAAGAAGTACTCTGTTACGGAAATTATATTCTTTGCCCCTCTAATCCTTCACTCCACCTGCCATATTCCCACATGATTTTTTTCTTTGCTGTTCTTGTCTAATTGTTattaataattaataaataacttatgatctaattgttattaataattaataacttatgatcacatgatttattaataaattaataaataac---ttaTCACCGCGTTTCCCCAATTCATTTATCTTTCTTTCATTTTCTCTCTTTGTGTGTTTTCTATCTTCATATTTCAGCACTTGCCACATATTTCCCACAAAATCATTTATGGTCAAACAACACTTCAACGTGTAGCATTTGTATTTCTCAATTCTTCCTCACTTTCTTCCTTCAGAATACTAAAGCTTCTTCTCTACTGACTGAGTCAATGGCCAATGGATAGAGTAAATAATTCTGCGGTATCTAAATTTGTATTGATTGGACTTTCAAGCTCTTGGGAGATGCATCTTTTTCTTTTTTGGTTCTTCTCTGTGTTCTACATGGGAATTATCCTGGAAAATCTCTTCATTGT
GTTCACAGTAATTATTGACTCTCATTTAAATTCCCC
+
+a score=246514
+s hg18.chr1 42487 2748 + 247249719 AGGTACTGCCTACTGGCCAACATTTATCTTCTTGATCTGGGTCTTCTCCTACAGTTCTGACTTTTTCACTAACTGCAGCATCATTTCTTTTCCAAGATGCATCATACAGATATTTTTCATTTGTGTCATGCGTAAAAATTGAGATGGTGCTGCTCATAACCATGGCATAGAGCAGGTACACTGCCAATCTGTAAGCCTCCCCATTACCTGACCACAATGAACCCCAAAATGTGTGTTTCCTTTGTTGGAGGCATCCTGGATAGTCAGGATAATCCATGCTGTATCTCAGTTTGTTTTTGCCATAAACTTGCCTTTTTGTGGCCCTAATAGAGTAGGTAGTTTTCACTGTGATTTTCCTTATGTCATGAAACTTGCTTGTGTAGACACTTACAAACTAGAGGTTGTAGTCACTGCTAACAGTGGGCTTATATCCATAGCTACCTGTTTCTTATTAATAATATCCTATATTTTCATTTCGGTAACCGTCTAGAATCCTTCTTCAGGAGACTTATCTAAAGCATTTGTGTCATGTTAGATCACATCACAGTAGGGATTTTGTTTTTTATGCCATGTATATTTCTGTATGTGTAGCCTTTGCCTAAAACAACACATGATTAATATTTGTTCATTGTTCCTTTTGCTATCACCCCTGTCTAGGATCTACACATTAAGAAACAAAGACATGAACGTCTCCATGGAAAGACTGGGAAAATGGATTGCAGGTTCTAGCAGGATGTCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCACCAAGAACACTGAAAGTCACATGGCTACCAGCATTATTGTGATAAGAACTACTATTTTGGGAGATAGTTTAGCAAAGGTGCCATGTAGAAATTGATTAAGTCAGAGGTATCTTTAACTTGCCACCACAGAGAAGAGATTAATTTCATATACTTCCATTGAGAAGAG
AGATAAGAATACAAAACCAAGCTGATTTGCAGGAGTAAACTTGATATTCAAATACTATTTCCTGAATGACATTTTCTGAGACATGCTAATTGTAATTACTTTCAGCTTCAAAACATAATAAATTTATCTCATAGTAAGCATATAGATGGAATAAATAAAATGTGAACTTAGGtaaattataaattaataaagtatatttttaaaatttCCATTTTAATTTCTGTTTAAATTAGAATAAGAAACAAAAACAACTATGTAATACGTGTGCAAAGCCCTGAACTGAGATTTGACTTTACCTTGAGCTTTGTCAGTTTACGATGCTATTTCAGTTTTGTGCTCAGATTTGAGTGATTGCAGGAAGAGAATAAATTTCTTTAATGCTGTCAAGACTTTAAATAGATACAGACAGAGCATTTTCACTTTTTCCTACATCTCTATTATTCTAAAAATGAGAACATTCCAAAAGTCAACCATCCAAGTTTATTCTAAATAGATGTGTAGAAATAACAGTTGTTTCACAGGAGACTAATCGCCCAAGGATATGTGTTTAGAGGTACTGGTTTCTTAAATAAGGTTTTCTAGTCAGGCAAAAGATTCCCTGGAGCTTATGCATCTGTGGTTGATATTTTGGGATAAGAATAAAGCTAGAAATGGTGAGGCATATTCAATTTCATTGAAGATTTCTGCATTCAAAATAAAAACTCTATTGAAGTTACACATACTTTTTTCATGTATTTGTTTCTACTGCTTTGTAAATTATAACAGCTCAATTAAGAGAAACC-GTACCTATGCTATTTTGTCCTGTGATTCTCCAAGAACCTTCCTAAGTTATTCTACTTAATTGCTTTATCACTCATATGAATGGGAATTTCTTCTCTTAATTGCTGCTAATctcccccatcttcaaatactctaccgggcttctggaacaccacagcttcctggctttttctcctacctcctgggcaagtccttccctgtgtctttt
gttgagtgttcctcatctgcttaactaccaatcaacctattgcccctaatttgatctttggcctgttttcacttagattctatccctacgtatcacccattcccacagctttaatcaccatctaaacactaggggctctcaaaccttgtatttttctttctttctttctttctttctttctttctttctttctttctttctt------------tctttctttcttcctccttttctttccttttctttctttcattctttctttcttttttaaggggcagggtctcactatgttgctgaggctggtctcaaactcctgacctcaagcaatctgtctgcttcagcctcccaagtagctgagaatacagggacaagccattgcacctgaccctggtactatttcttgagttcctgatccacagatctaacctcctactttcctggatgccacacaagatcttccactcaacaagtctgcaactaaactagccttcctcttttcaaacctactcttctttcagtgttctcagtcacaataatttgtaccaactagttacctagttgcacaacccaaaatctgggaaaaataatagatttctttctccatagtacccccaaatcaataaatcatcaagtcttattctaccttccaaagagccttacatatgttcctttattttcatctgtaacaccactattcctgtctaagcctacctatgtcatttttggaagagaatatagtcacctatgcgaccttcccacttaaaatcctactatttacgcttcagtaaaagaaaaaaaatttttaatctaagtatgtaatt
+s panTro2.chrUn 9707735 2758 + 58616431 AGGTACTGCCTACTGGCCAACATTTATCTTCTTGATCTGGGTCTTCTCCTACAGTTCTGACTTTTTCACTAACTGCAGCATCATTTCTTTTCCAAGATGCATGATACAGATATTTTTCATTTGTGTCATGCGTAAAAATTGAGATGGTGCTGCTCATAACCATGGCATAGAGCAGGTACACTGCCAATCTGTAAGCCTCCCCATTACCTGACCACAATGAACCCCAAAATGTGTGTTTCCTTTGTTGGAGGCATCCTGGATAGTCAGGATAATCCATGCTGTATCTCAGTTTGTTTTTGCCATAAACTTGCCTTTTTGTGGCCCTAATAGAGTAGATAGTTTTCACTGTGATTTTCCTTATGTCATGAAACTTGCTTGTGTAGACACTTACAAACTAGAGGTTGTAGTCACTGCTAACAGTGGGCTTATATCCATAGCTACCTGTTTCTTATTAATAATATCCTATATTTTCATTTTGGTAACCATCTAGAATCCTTCTTCAGGAGACTTATCTAAAGCATTTGTGTCATGTTAGATCACATCACAGTAGGGATTTTGTTTTTTATGCCATGTATATTTCTCTATGTGTAGCCTTTGCCTAAAACAACACATGATTAATATTTGTTCATTGTTCCTTTTGCTATCACCCCTGTCTAGGATCTACACATTAAGAAACAAAGACATGAACGTCTCCATGGAAAGACTGGGAAAATGGATTGCAGGTTCTAGCAGGATGTCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCACCAAGAACACTGAAAGTCACATGGCTACCAGCATTATTGTGATAAGAACTACTATTTTGGGAGATAGTTTAGCAAAGGTGCCATGTAGAAATTGATTAAGTCAGAGGTATCTTTAACTTGCCACCACAGAGAAGAGATTAATTTCATATACTTCCATTGAGAAGAG
AGATAAGAATACAAAACCAAGCTGATTTGCAGGAGTAAACTTGATATTCAAATACTATTTCCTGAATGACATTTTCTGAGACATGCTAATTGTAATTACTTTCAGCTTCAAAACATAATAAATTTATCTCATAGTAAGCATATAGATGGAATAAATAAAATGTGAACTTAGGtaaattataaattaataaagtatatttttaaaatttCCATTTTAATTTCTGTTTAAATTAGAATAAGAAACAAAAACAACTATGTAATACGTGTGCAAAGCCCTGAACTGAGATTTGACTTTACCTTGAGCTTTGTCAGTTTACGATGCGATTTCAGTTTTGTGCTCAGATTTGAGTGATTGCAGGAAGAGAATAAATTTCTTTAATGCTGTCAAGACTTTAAACAGATACAGACAGAGCATTTTCACTTTTTCCTGCATCTCTATTATTCTAAAAATGAGAACATTCCAAAAGTCAGTCATCCAAGTTTATTCTAAATAGATGTGTAGAAATAACAGTTGTTTCACAGGAGACTAATCGCCCAAGGATATGTGTTTAGACGTACTGGTTTCTTAAATAAGGTTTTCTAGTCAGGCAGAAGATTCCCTGGAGCTTATGCATCTGTGGTTGATATTTTGGGATAAGAATAAAGCTAGAAATGGTGAGGCATATTCAATTTCATTGAAGATTTCTGCATTCAAAATAAAAACTCTAATGAAGTTACACATACTTTTTTCATGTATTTGTTTCTACTGCTTTGTAAATTATAACAGCTCAATTAAGAGAAACCGGTACCTATGCTATTTTGTCCTGTGATTCTCCAAGAACCTTCCTAAGTTATTCTACTTAATTGCTTTATCACTGATATGAATGGGAATTTCTTCTCTTAATTGCTGCTAATctcccccatcttcaaatactctaccgggcttctggaacaccacagcttcctggctttttctcctacctcctgggcaagtccttccctgtgtctttt
gttgagtgttcctcatctgcttaaccaccaatcaacctattgcccctaatttgatctttggcctgttttcacttagattctatccctacgtatcacccattcccacagctttaattaccatctaaacactaggggctctcaaaccttgtatttttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctgtctttctttcttcctccttttctttccttttctttctttcattctttctttcttttttaaggggcagggtctcac--tgttgctgaggctggtctcaaactcctgacctcaagcaatctgcctgcttcagcttcccaagtagctgagaatacagggacaagccattgcacctgaccctggtactatttcttgagttcctgatccacagatctaatctcctactttcctggatgccacacaagatcttccactcaacaagtctgcaactaaactagccttcctcttttcaaacctactcttctttcagtgttctcagtcacaataatttgtaccaactagttacctagttgcacaacccaaaatctgggaaaaataatagatttctttctccatagtaccccaaaatc-ataaatcatcaagtacaattctgccttccaaaGAGCAAAACAAATGTTCATTTAGCTTCGTTTGTCACACCAATACTCGAGTCTAAGCCTACAGGAATCACACATGGAGGGGAATATAGTCACCTATGTGATCTTCCCACTCAAAATCGCATTATACATGCTTCAGTAAAAGAAAAAAAAGTGCTAATCTAAGTATGTAATT
+
+a score=245281
+s hg18.chr1 45644 2651 + 247249719 TGCATTTTAAGTTCAACATGAGCAGGACTTTGTCGTGTTCACCTCTATCACATCATAAATATAGCAAACAGTAAAACTATTGCAACATGACTAATGTATTGAACGATGCTTCAGCTTTCTTCTTACGTTCAATCACAGGTCATATGACTAAAGAACTTCCTTTTTAATCTCCTTTTCTATTCTCAATTAATTTCTTCTGCCTGCATCACCTCAAGTCTCTGGGGTGAAATCCACTAATGAATTCCTTTTGCAGCTTAAGCCAATTCCAATCTTGAGCCAATCTCAGGTGAAGAAGCCTGTAAATTATCACTCTCAGTCCTCTCTTGTACTACTAGGTCTCATGAACTCTTCATTAACAACTCCAGCTTCTCTGTTAGCCCAAAAGCCTTTTGCTGCCTAGAAAACCCATGATTCATGCCTCAGGAAACAGCCTTCAAATCACAACATGTTCTGTATCTGGCTGGCCAACTCCCTGCAACTTATTTCTGCCTAGATTCTCCCTCATTCATTTCAATACGCTGTTCGGCCTGCTACCCCAGTTTCCCACTTAGAACAATGGCACACAGGACAGGAGCACATTGGCACATCAGAATGACTTATGTACTGCTCATTGTGTTGCAGAAGAGACCTCTGTGGGGGCAATAGAACAGATTTTCCTCTCACGTCACTGTAGTTGTGGTTTCCCTAAGCACCTACACTGTTTCACCTCATCTTAGGTAGACAATAATCCATGTAACTGACTGTGTATCCTAATTTTAAAAAATATTTCTGCCCACATTATTCTGCAGTTTTTATCTTGCTTACGTATTTTTGGAATGTTACTATTTTTCAAAAATTAATTTGGGATCAACCAACACTTCTTATTCTGCTGCTGTTCTAGAGAAAATCATTTTCCTCATTTCTGAACAAGAGAAAATGAAATACAGCTCTAAACAAATGCCACTGTAA
ACCAAGGTGGAGCCTTTGCACTTTCAGGCCACCATGATAACCTGGAGATTAGATTTTTCTGTGTCTTTATATCAATAATAAAGCCAAGCTTCTCCAGGGGTATCCACTAGGCTTGTCTCAATGGCTCAATACAGGTCCTTTTGTGAATGATTACCTCACCCTCATGGAAACACACTCTTGTTACAGAAACTCAGAATGATTCTATTTTTTCTTTTATATTTGTATATGTTTTTCCAATACCTCTGAAAAAACTGATCCAAAAAAAA--TACAAATTTTAATTGTAGCCAGTCAATTCAGGAAGGATAAAGGTCAAAAACTTTCAAAGAAACCTTCAGCCCCAACACACTAAACTTTGGGAGCACAGGTTGGCATCCAGAGGTAAACATTTGCTATAACTGATAACAGGAGAAGGATCCATTTATTCACCTGTTATCAATTACAGGCATTGTATTTAAAGATCAGATGTTTTATATTTATTTCTTCAAATTTCATTCATGGTGCCATAAGTGAAGGTATCTCTGTCCACCCTGAATATATTTTCACTCCCTCATCTCAGTCATTCCGAACAATTCACACACTAAGATTACCCATGCTAAATGGGGATTCTTTTTTACTAGCCAATGTAGTACCTCAAATCCTTCCTTCCCTCCCCCTATTTCATCAGCAGGCAATTCTTTTGATACTTTTGTCAAGGGGAAATTGTGTGACTCAGAGATCTAGTCCCCAAGAGAAACTAATAATGGGCTGGGTATTGTCTGTCTCAGCAGCATCAGTGGGTCCCTCTCCTGTGCAGCTAATTAGCTTCCTTTCCAATATGAAGAATCTTATATATAGCTTTGTCTTTGGGGTATTACATAAATGAAGATTAAGCTATCTGAATTTCTCCTTCTCCTAAAAATGCACATCCTATGACTGAAAAGACAGGTAAAAGAGATGCTTTTAATTACAAAACTTTCCCTGTCGTGGTTGCTTCTCTCTATCCTTCTA
AACTCCCTTTCAATTTCTTCTCTTCTGTAACATATTTGTGCCCAAAATCTTCTGCTTTCTGAAATATTTTATCTTTTTCTTCCACACTATCTCTTATTTTCCAATTTTAATCATTAAATTATATTATGTCTTATAAAACTAATCCCACATATAAACCCCTATGATAATTTCAGTTTGTCCCTAGTATGAAGTTCTTTAAAGATGTGTAGTTTTCTAACTTTCATGCTCTCCAATTAATTATAAACTTCATTTTCCACTCTGAAAAGGAGATGTCTGATCTCAGCTATTTCCATCCTATTTGAAAACCAGATTTAGTTTTAAACCAGAGGAAGGGAATCTCAAGTCTTTACCTCCCACAGTCTGGTGTGATTCTCTCTCTTTTGGTATTACCTTCCTCCACATTGGAACACTCCAGCCAATGCATAGGCTGAGAGGCTATCTCAGATTCAGAAAGATTTGGCCTCATCCCAGGGGAGGGTACAGAGGAGCTGATGACTATGAATTCTGAAATGGAACTGTTCCAGG----TTGAAGAAATAAGAAAGGGAATTGGGAAGAGCAATGCCCAGTGAAAAAGAAGAAATAATATTTTAGGAAGTGAATGCTAATTTTATTTTAAACAAAATAAGAACTCAAGGAATAAGAGGGTTCTTCCAATAGGTTAGAGTGATCCTGTCAAACATATATGCTTCTAGATTTTTTTAAAGACTGTTTCTACT
+s panTro2.chrUn 9711251 2657 + 58616431 TGCATTTTAAGTTCAACATGAGCAGGACTTTGTCATGTTCACCTCTATCACATCATAAATATAGCAAAGAGTAAAACTATTGCAACATGACTAATGTATTGAACGATGCTTCAGCTTTCTTCTTACGTTCAATCACAGGTCATATGACTAAAGAACTTCCTTTTTAATCTCCTTTTCTATTCTCAATTAATTTCCTCTGCCTGCATCACCTGAAGTCTCTGGGGTGAAATCCACTAATGAATTCCTTTTGCAGCTTAAGCCAATTCCAATCTTGAGCCAATCTCAGGTGAAGAAGCCTGTAAATTATCACTCTCAGTCCTCTCTTGTACTACTAGGTCTCATGAACTCTTCATTAACAACTCCAGCTTCTCTGTTAGCCCAAAAGCCTTTTGCTGCCTAGAAAACCCATGATTCATGCCTCAGGAAACAGCCTTCAAATCACAACATGTTCTGTATCTGGCTGGCCAACTCCCTGCAACTTATTTCTGCCTAGATTCTCCCTCATTCATTTCAATACGCTGTTCGGCCTGCTACCCCAGTTTCCCACTTAGAACAATGGCACACAGTACAGGAGCACATTGGCACATCAGAATGACTTATGTACTGCTCATTGTGTTGCAGAAGAGACCTCTGTGGGGGCAATAGAACAGATTTTCCTCTCACGTCACTGTAGTTGTGGTTTCCCTAAGCACCTACACTGTTTTACCTCATCTCAGGTAGACAATAATCCATGTAACTGACTGTGTATCCTAATTTTAAAAAATATTTCTGCCCACATTATTCTGCAGTTTTTACCTTGCTTACGTATTTTTGGAATGTTACTATTTTTCAAAAATTAATTTGGGATCAACCAACATTTCTTATTCTGCTGCTGTTCTAGAGAAAATCATTTTCCTCATTTCTGAACAAGAGAAAATGAAATACAGCTCTAAACAAATGCCACTGTAA
ACCAAGGTGGAGCCTTTGCACTTTCAGGCCACCATGATAACCTGGAGATTAGATTTTTCTGTGTCTTTACATCAATAATAAAGCCAAGCTTCTCCAGGGGTATCCACTAGGCTTGTCTCAATGGCTCAATACAGGTCCTTTTGTGAATGATTACCTCACCCTCATGGAAACACACTCTTGTTACAGAAACTCAGAATGATTCTATTTTTTCTTTTATATTTGTATATGTTTTTCCAATACCTCTGAAAAAACTGATCCAAAAAAAAAATACAAATTTTAATTGTAGCCAGTCAATTCAGGAAGGATAAAGGTCAAAAACTTTCAAAGAAACCTTCAGCCCCAACACGCTAAACTTTGGGAGCACAGGTTGGCATCCAGAGGTAAACATTTGCTATAACTGATAACAGGAGAAGGATCCATTTATTCACCTGTTATCAATTACAGGCATTGTATTTAAAGATCAGATGTTTTATATTTATTTCTTCAAATTTCATTCATGGTGCCATAAGTGAAGGTATGTCTGTCCACCCTGAATATATTTTCACTCCCTCATCTCGGTCATTCCGAACAATTCACACACTAAGATTACCCATGCTAAATGGGGATTCTTTTTTACTAGCCAATGTAGTACCTCACATCCTTCCTTCCTTCCCCCTATTTCATCAGCAGGCAATTCTTTCGATACTTTTGTCAAGGGGAAATTGTGTGACTCAGAGATTTAGTCCCCAAGAGAAACTAATAATGGGCTGGGTATTGTCTGTCTCAGCAGCATCAGTGGGTCCCTCTCCTGTGCAGCTAATTAGCTTCCTTTCCAATATGAAGAATCTTATATATAGCTTTGTCTTTGGGGTATTACATAAATGAAGATTAAGCTATCTGAATTTCTCCTTCTCCTAAAAATGCACATCCTATGACTGAAAAGACAGGTAAAAGAGATGCTTTTAATTACAAAACTTTCCCTGTCGTGGTTGCTTCTCTCTATCCTTCTA
AACTCCCTTTCAATTTCTTCTCTTCTGTAACATATTTGTGCCCAAAATCTTCTGCTTTCTGAAATATTTTATCTTTTTCTTCCACACTATCTCTTATTTTCAAATTTTAATCATTAAATTATATTATGTCTTATAAAACTAATCCCACATATAAACCCCTATGATAATTTCAGTTTGTCCCTAGTATGAAGTTCTTTAAAGATGTGTAGTTTTCTAACTTTCATGCTCTCCAATTCATTATAAACTTCATTTTCCACTCTGAAAAGGAGATGTCTGATCTCAGCTATTTCCATCCTATTTGAAAACCGGATTTAGTTTTAAACCAGAGGAAGGGAATCTCAAGTCTTTACCTCCCACAGTCTGGTGTGATTCTCTCTCTTTTGGTATTACCTTCCTCCACATTGGAACACTCCAGCCAATGCATAGGCTGAGAGGCTATCTCAGATTCAGAAAGATTTGGCCTCATCCCAGGGGAGGGTACAGAGGAGCTGATGGCTATGAATTCTGAAATGGAACTGTTCCAGGTTGTTTGAAGAAATACGAAAGGGAATTGGGAAGAGCAATGCCCAGTGAAAAAGAAGAAATAATATTTTAGGAAGTGAATGCTAATTTTATTTTAAACAAAATAAGAACTCAAGGAAAAAGAGGGTTCTTCCCATAGGTTAGAGTGATCCTGTCAAACATATATGCTTCTAGATTTTTTTAAAGACTGTTTCTACT
+
+a score=547947
+s hg18.chr1 48332 5984 + 247249719 CTGGAATTTAGGAGGTCTGCCTTCTGATTCTGACTTCTTGAATGTATTGTTAGCCATTTAACCACACTGTGTTGTTTCTCATTCTACCTGTAGAATCTCAAAGTTCTTTCCCACTTCTATACAAAACTATAATTCTGAACATCCTTTTTGTTTAATATAAGTCTGCATTTCCTGTTTGAAGATATGTGTCCCAGACCCTAAATGACTGACAAATTTTAAATCTCCAATAGGAAAGATGACAAACTCTATGGAAACTTGGCTTCTGAAGAACTCCTAGAAGCTTTCCAAAGTCATCAGTGTTTCCTAAGAAGGCAGAGAAATCAAACACATGGTCTTTTCCTCCAGACAAGCTCCTTTGGGTCATCAGGATTTCTTCAACAATAAAATGTAATAATTCCAAATGTTTGTAACAGAATGGGTAGGACTTTCTTCACTTATTTAAATACTCCCTTTTTTATGCAACTGAGTTTTCATCAACAAGTACAAGCTTGTGAAGGAGTACTTTAAAATGCAATTTCTCTCTATTTTTGTGGGGGCTAATATTTTATTTCTCATATTGACAATTTATTATGCTGTTTTTAAAAAGttcattcatcaagtatttcttgagctttttctatgagacaggcactgttttaggcaagtaattatgcactgaacaatgcaaaaagtttccctgcactcatggactttaattttaCATTTATGAAAAGCTACAAATATTAGAATAAGTAAAATACTGCCTGGAGGCTAAAGCATATTTTGATCACTTATTCCCTAATTCTTTTAGAAGAGAACTCACCTGTCGGTTAGCTGAACCACTGCCAGTGATATCCAACTATACATTCAATCCCACCATACCTCATTATCACACCTATTCACTCACAAGCTTAAACTCTTAACTTTTCTCCACATATCAGTGACTATTTCCTACAGCTTTTCTTTTAC
TTTCCATGTTTGCAGTGACAATATACATAAACAGTGTATGAAAACTCAAGTAAAATCTACTCTCTCAGGTGTTCATAATGTATCAATGTATATTGCTTTAAGCCTGAAGGTAACCTAAGTAAAGATGTACCATGTTCCACCAATGCTTCTTTTGATCATCATTTTATCCTGTTTTTTCTTTAGGATTCTTTCTTATTCCTTCCCCTGACCCTTCTTTTATTCTCCAAATTTCTTTCCAATTCATCTTTGTTCTTCCCTTTCCTTTTTACTCTCTTTAAACATTCTATGGACTCTGCCTCCTTCACACTGATATTGAACGCCCATAGTTTCATATTTTGGATTGCGATTGTTTTATTTTAAAATGGCAAATGTTCATGTTATAAAGAGAATTTTTCAGTCTTTAGACTAATAGGTTCATGTAGTTTGGGATTTTCCTCTTTAAGAAAATTAATTATCACTCACACTCCAAGACAAACACCATTTCAGTAGCAATATGAATTTCAGTAGTAATAGGAATCTCCAAATATGACAAAGTAATTCAGACATTAATTGCTTTTGTTTTGGAATTGCTCTTATAAGATGAAATATCACTTTCATGATGAGAGTCCTAGAGTGCTTGGTTTATATATTGTATCTTAGTTTTAACAGGATAAAACACTTGATCCTAAGCAGTAAACATGATTCTTCAGCTTCAACTTCATTTCTTTATAAATAACTATTTATGAATTGGTGTTGAGCTTAGTAAGTCACCAAACACCTTCTGCTCAGCAGCATAAAGGACATTTCCATGAAACCTCCCAGGGATAATCTTATTTACTCTATAATGTTTCCCGGGTTCAATTCCTCTCCCAAAATTCTTTGTTCTTAAGCCCCTATGATCTGGGTGATCTAAATATGGGTAAGAAGTCCAGGGATAGCACTATGAATGAAGTGAAAATAGTAAAACATAGTTAAAAATGTAcagatgctctctgacttataatagggtt
acgtcctgataaatccatcataagtcaaaaatgcatttaatattcctaatgtacctcacatcatagtttggcctagcctaccttaaatgtgctcagaacactttcattagcttatataagatcacctaatacaaagcctattttataataaaatattgaatagctcacgtaatatactgactactatactcaagtacagtttcttctgaatgcatgtcactttctcaccattgtaaagtcaaacaattataagtcaaactatcacaagccagggaccatcCATATGTATTTCATTCAGAAAATGCTGGAAAGAGCATTTCGGAGAATATCTAGATGAGAGAAGGTAGAAAGCCATGCACAAATTCACTGAGAGTTTAAAAAAATACATGCATATTGTGGAGATAGAAATCAAATCTATTTGTCTCCATCTGCTGTATTCTTCCCAAAATATTATCTCTTCTTATCCCATTGTACTATATTGCATTTCTTTGACCATTTATTGTGTATCTCTTAATATTTCCCACTTCATCATTACTAACCTCACTCACTCTGAACTTGATGAGAGCACCTGAGCATTAATTTTTCTTATAATTATTTAATGATTACCAGAATTCGTTCAGTATGGCCAGCTCTGGTCAAAGTGAGGCAGGCAAGATGCTTTGTCAACTGCCTGGATGGAATGTCTCAAAAGGTTTCCATTTCATGGTAGCATTATGCAAAGTTCAAGACGTTTAATCAAGACCCTTCACTTACTTAACTATACCTCCTTGAGAATCCCATCTATGAAAAAATTCTAGTCATTATAAAAATGATTGATTAAATGAGGGAAGTAGTAGAGTTCTTCATTTCTTTAGTTGGTTTAGTCTCCTATGAGTCAATCCTA-TTTTCAAAATTCTTAATAAACCATTTATTCCTTCAACTTTCTATGCCATTTGATGTTTTGTAAAAAAAAAAATATAATATGTATACAAAAAGATATTTCAAAATC
TAGAAAGAGAGCTTTAGAGCTTTGTAAAGCTCTTTTAAAAATCAAAAACAACTACTGTTAATTAACATGTTGTACTATGCAATTTGTTTACCATTATTACTCTTGGTATTTTTAAGAAAAGTCTTTCCATTGTTATTATAAATGCTTCTATTGATATTTATTTTAATAACTGTTATTACAGTCCGTCATGTACATACACTATACTTAAACCTAATGTTTGGTATTTAAATCGTTTCAAGATTTTATCACTGTCAACAAAGTATGATGAATATTTTTATGCTGAAAACTTCTGTAAAAatagaattccaagagtattattgcaccaaaaggcatggacttaaaattcttgatacatgatttcaaaatattttctttaaggtttgaatcagtctatattccctccagcagcgtataaaagtgccaatttctctgatccttaGCCAGTTTGGGTAATAATAATTGTAAAACttttttttcttttttttt-gagacagagtctccctctgtcgccaggctgaagtgcagtggcgcaatctcggctcactgcaacctccgcctcccggggtcaagctattctcctgcctcagcctcccaagtagctgggactacaggcatgcaccaccatgcccagctaatttttgttatttttagtagagatggagtttccccatgttggacaggatggtctcgatctcttgacctcgtgatccaccctcctcggcctcccaaagtgctgggataacaggcgtgaacaaccatgcccggccTGTAAAACTTTTTCCTAATTTAACAGAAAAATAATAGTATTATATTTTATCATATTTCTTTGATTTCTAAGacacacatacacacacacacacacaTATCTGTATATACAAATACACGTATAGCTTACATTTTAATTCTTCATTTCATTTGTTCATTTATTAGGTCTTGGAGATTTTGTGAAACTGTTTAAATTCTTTTTTATACTATGAAGATATCAACCT
TTTGTCTCTACAGCATTTCAAATTCAAGTATGATTCACGTGTTGGTTTGGGGTAGATCATTATAGGCACATGTAGGAAACAGCTTTCAGAGATGCCTTAACCGTAATTATGCATTTGTATTCTAATTTTTATTTAATGTTATTATTGATTGCATTTTTAAAGATTCTGTATTTTTTAAACCATTTATTTGTATATGTTGGTATACAATCTTGCCATTTTCTGGGATTTCATATTTCCTTATTTTTGTTTTTTACCTTTTTTGGCTTGAATTTTTTGAGTTTTTATGCATTCTTTTCCAGTTTCTTAAGATGCTAATAAGTTCATGTATTTGAGCAATTGAGAACATTTAAAGCAATAGACTGCCTCTGAGCACAGCTTTGTCCATATTACATTAACCTTTTATACCCTGGGTTCCCACTAGTTTTTAAATAATCTACTATCAAATAAAAGATTTGTTAATAATAAATTTTAAATCATTAACACTTAACGCATTATTTTCAGTCACACTAAGTTGATTCCTTCGTTTCTTTCAGGTTGCTTCAGAGTCTTCCCTTCTATCTGATTCAGTGGACCAAGTAAATGACTCTCTGGTAACAGAATTTGTATTACTTGGACTTGCACAATCCTTGGAAATGCAGTTTTTCCTTTTTCTCTTCTTCTCTTTATTCTATGTGGGAATTATCCTGGGAAAACTCTTCATTGTGTTCACAGTGATCTTTGATCCTCACTTACACTCCCCCATGTATATTCTGCTGGCCAACCTATCGCTCATTGACTTGAGCCTTTCATCTACCACAGTTCCTAGGTTGATCTACGATCTTTTTACTGATTGTAAAGTTATTTCCTTCCATAATTGCATGATACAAAAGTTCTTTATCCATGTTATGGGAGGAGTTGAAATGGTGCTGCTGATAGTCATGGCATATGATAGGTACACTGCGATCTGCAAGCCTCTCCACTATCCAACTATTATGAATCCCAAAATGTGC
ATGTTTTTGGTAGCAGCAGCTTGGGTCATTGGGGTGATTCATGCTATGTCTCAGTTTGTTTTTGTCATAAATTTACCCTTCTGTGGCCCTAATAATGTGGGGAGCTTTTATTGTGATTTTCCTCGGGTTATTAAACTTGCATGCATGGACACTTATGGGCTAGAATTTGTGGTCACTGCCAACAGTGGATTCATATCGATGGGCACCTTCTTTTTCTTAATTGTATCATACATTTTTATTCTGGTCACTGTCCAACGACATTCCTCAAATGATTTATCCAAAGCATTCTTCACTTCGTCGGCTCACATCACCGTAGTGGTTTTGTTTTTTGCTCCATGCATGTTTCTCTACGTGTGGCCTTTCCCTACTAAGTCATTGGATAAATTTTTTGCCATCATGAACTTTGTTGTCACCCCTGTCGTAAATCCTGCCATCTATACTTTAAGGAACAAAGATATGAAGTTTGCAATGAGAAGGCTGAATCAACATATTTTAAATTCTATGGAGACGACATAACACATTTGGTTGATGAGAGCACAGGATAAATGCCATGGACCATCAAGACTCCTGTGATCACCATGATCACTATGGAACGCGCACATTTTTAGTATTGCCTGAAAAAACTGAAAAATCTGCAAAAAGGATGCATTAAATCTAAGAATTGTATTTCAGATAAAGTTGCAACATTTTTTGTTAATCATAAAAAGTATATATTTCTATCTAATGTGTGTATCTAATTAACAGCAATGACTACCTTTAATTTTGATGTAGTTATTTTATATCTGTATATAAGCACATACACATATATATGACCTAGGTTTATTTATCAGTATTTTTATGCTGATAATAAGCATCACTGGAAATTAATTTTCTTATGGAAATTATGTGGATCCAATGGATAAAATATGAGTTTATATAAATTAGTAAATGCCAAAATCAAGGAAGAAACAATTTTTATTTTAATTGTACTTTAAGTTAGATAAATGGTA
AGGTCAACAGCTTGTTACAACCCTTAAGTATTATTTTCAGGCTGATTGTCAATATGTTTTGTACAatgttctcacttataggtgggaattgaa
+s panTro2.chrUn 9714242 5977 + 58616431 CTGGAATTTAGGAGGTCTGCCTTCTGATTCTGACTTCTTGAATGTATTGTTAGCCATTTAACCACACTGTGTTGTTTCTCATTCTACCTGTAGAATCTCAAAGTTCTTTCCCACTTCTATACAAAACTATAATTCTGAACATCCTTTTTGTTTAATATAAGTCTGCATTTCCTGTTTGAAGATATGTGTCCCAGACCCTAAATGACTGACAAATTTTAAATCTCCAATAGGAAAGATGACAAACTCTATGGAAATTTGGCTTCTGAAGAACTCCTAGAAGCTTTCCAAAGTCATCAGTGTTTCCTAAGAAGGCAGAGAAATCAAACACATGGTCTTTTCCTCCAGACAAGCTCCTTTGGGTCATCAGGATTTCTTCAACAATAAAATGTAATAATTCCAAATGTTTGTAACAGAATGGGTAGGACTTTCTTCACTTATTTAAATACTCCCTTTTTTATGCAACTGAGTTTTCATCAACAAGTACAAGCTTGTGAAGGAATACTTTAAAATGCAATTTCTCTCTATTTTTGTGGGGGCTAATATTTTATTTCTCATATTGACAATTTATTATGCTGTTTTTAGAAAGttcattcatcaagtatttcttgagctttttctatgagacaggcactgttttaggcaagtaattatgcactgaacaatgcaaaaagtttccctgcactcatggactttaattttaCATTTATGAAAAGCTACAAATATTAGAATAAGTAAAATACTGCCTGGAGGCTAAAGCATATTTTGATGACTTATTCCCTAATTCTTTTAGAAGAGAACTCACCTGTCGGTTAGCTGAACCACTACCAGTGATATCCAACTATACATTCAATCCCACCATACCTCATTATCACACCTATTCACTCACAAGCTTAAACTCTTAACTTTTCTCCACATATCAGTGACTATTTCCTACAGCTTTTCTTTTAC
TTTCCATGTTTGCAGTGACAATATACATAAACAGTGTATGAAAACTCAAGTAAAATCTACTCTCTCAGGTGTTCATAACGCATCAATATATATTGCTTTAAGCCTGAAGGTAACCTAAGTAAAGATGTACCATGTTCCACCAATGCTTCTTTTGATCATCATTTTATCCTGTTTTTTCTTTAGGATTCTTTCTTATTCCTTCCCGTGACCCTTCTTTTATTCTCCAAATTTCTTTTCAATGCATCTTTGTTCTTCCCTTTCCTTTTAACTCTCTTTAAACATTCTATCGACTCTGCCTCCTTCACACTGATATTGAATGCCCATAGTTTCATATTTTGGATTGCGATTGTTTTATTTTAAAATGGCAAATGTTCATGTTATAAAGAGAATTTTTCAGTCTTTAGACTAATAGGTTCATGTAGTTTGGGATTTTCCTCTTCAAGAAAATTAATTATCACTCACACTCCAAGACAAACACCATTTCAGTAGCAATATGAATTTCAGTAGTAATAGGAATCTCCAAATATGATAAAGTAATTCAGA-ATTAATTGCTTTTGTTTTGGAATTGCTCTTATAAGATGAAATATCACTTTCATGATGAGAGTCCTAGAGTGCTTGGTTTATATATTGTATCTTAGTTTTAACAGGATAAAACACTTGATCCTAAGCAGTAAACATGATTCTTCAGCTTCAACTTCATTTCTTTATAAATAAATATTTATGAATTGGTGTTGAGCTTAGTAAGTCACCAAACACCTTCTGCTCAGCAGCATAAAGGACATTTCCATGAAAACTCCCAGGGATAATCTTATTTACTCTATAATGTTTCCCGGGTTCAATTCCTCTCCCAAAATTCTTTGTTCTTAAGCCCCTGTGATCTGGGTGATCTAAATATGGGTAAGAAGTCCAGGGATAGCACTATGAATGAAGTGAAAATAGTAAAACATAGTTAAAAATGTAcagatgctctctgacttataatagggtt
atgtcctgataaatccatcataagtcaaaaatgcatttaatattcctaatgtacctcacatcatagtttagcctagcctaccttaaatgtgctcagaacactttcattagcttatataagatcacctaatacaaagcctattttataatacaatattgaatagctcacgtaatatactgactactatactcaagtacagttt--tctgaatgcatgtcactttctcaccattgtaaagtcaaacaattataagtcaaactgtcacaagccagggaccatcCATATGTATTTCATTCAGAAAATGCTGGAAAGAGCATTTAGGAGAATATCTAGACGAGAGAAGGTAGAAAGCCATGCACAAATTGACTGAGAGTTTAAAAAAATGCATGCATATTGTGGAGATAGAAATCAAATCTATTTGTCTCCATCTGCTGTATTCTTCCCAAAATATTATCTCTTCTTATCCCATTATACTATATTGCATTTCTTTGACCATTTATTGTGTATCTCTTAATATTTCCCACTTCATCATTACTAACCTCACTCACTCTGAACTTGATGAGAGCACCTGAGCATTAATTTTTCTTATAATTATTTAATGATTACCAGAATTCGTTCAGTATGGCCAGCTCTGGTCAAAGTGAGGCAGGCAAGATGCTTTGTCAACTGCCTGGATGGAATGTCTCAAAAGGTTTCCATTTCATGGTAGCATTATGCAAAGTTCAAGACGTTTAATCAAGACCCTTCACTTACTTAACTATACCTCCTTGAGAATCCCATCTATGAAAAAATTCTAGTCATTATAAAAATGATTGATTAAATGAGGGAAGTAGTAGAGTTCTTCATTTCTTTAGTTGGTTTAGTCTCTTATGAGTCAATCCTAGTTTTCAAAATTCTTAATAAACCATTTATTCCTTCAACTTTCTATGCCATTTGATGTTTTGTCAAAAAAATA-TATAATATGTATACAAAAAGATATTTCAAAATC
TAGAAAGAGAGCTTTAGAGCTTTGTAAAGCTCTTTTAAAAATCAAAAGCAACTACTGTTAATTAACATGTTGTACTATGCAATTTGTTTACCATTATTACTCTTAGTATTTTTAAGAAAAGTCTTTCCATTGTTATTATAAATGCTTCTATTGATATTTATTTTAATAACTGTTATTACAGTCCGTCATGTACATACACTATACTTAAACCTAATGTTTGGTATTTAAATCGTTTCAAGATTTTATCACTGTCAACAAAGTATGATGAATATTTTTATGCTGAAAACTTCTGTAAAAatagaattccaagagtattattgcaccaaaaggcatggacttaaaattcttgatacacgatttcaaaatattttctttaaggtttgaatcagtctatattccctccagcagcgtataaaagtgccagtttctctggtccttagccagtttggATAATAATAATTGTAAAACttttttttcttttttttttgagacagagtctccctctgtcgccaggctgaagtgcagtggcgcaatctcggctcactgcaacctccgcctcccggggtcaagctattctcctgcctcagcctcccaagtagctgggactacaggcatgcaccaccatgcccagctaatttttgttatttttagtagagacggagtttccctatgttggacaggatggtctcgatctcttgacctcgtgatccaccctcctcggcctcccaaagtgctgagataacaggtgtgaaccaccatgcccggccTGTAAAACTTTTTCCTAATTTAACAGAAAAATAATAGTATTACGTTTTATCATATTTCTTTGATTTCTAAGacacacatacacacacacaca----tatctgtatatacaaatacacgtataGCTTACATTTTAATTCTTCATTTCATTTGTTCATTTATTAGGTCTTGGAGATTTTGTGAAACTGTTTAAATTCTTTTTTATACTATGAAGATATCAACCT
TTTGTCTCTACAGCATTTCAAATTCAAGTATGATTCACGTGTTAGTTTGGGGTAGATCATTATAGGCACATGTAGGAAACAGCTTTCAGAGATGCCTTAACCGTAATTATGCATTTGTATTCTAATTTTTATTTAATGTTATTATTGATTGCATTTTTAAAGATTCTGTATTTTTTAAACCATTTATTTGTATATATTGGTATACAATCTTGCCATTTTCTGGGATTTCATATTTCCTTATTTTTGTTTTTTACCTTTTTTGGCTTGAATTTTT-GAGTTTTTATGCATTCTTTTCCAATTTCTTAAGATGCTAATAAGTTCATGTATTTGAGCAATTGAGAACATTTAAAACAATAGACTGCCTCTGAGCACAGCTTTGTCCATATTACATTAACCTTTTATACCCTGGGTTCCCACTAGTTTTTAAATAATCTACTATCAAATAAAAGATTTGTTAATAATACATTTTAAATCATTAACACTTAACGCATTATTTTCAGTCACACTAAGTTGATTCCTTCCTTTCTTTCAGGTTGCTTCAGAGTCTTCCCTTCTATCTGATTCAATGGACCAAGTAAATGACTCTCTGGTAACAGAATTTGTATTACTTGGACTTGCACAATCCTTGGAAATGCAGTTTTTCCTTTTTCTCTTCTTCTCTTTATTCTATGTGGGAATTATCCTGGGAAACCTCTTCATTGTGTTCACAGTGATCTTTGATCCTCACTTACACTCCCCCATGTATATTCTGCTGGCCAACCTATCGCTCATTGACTTGAGCCTTTCATCTACCACAGTTCCTAGATTGATCTATGATCTTTTTACTGATTGTAAAGTTATTTCCTTCCATAATTGTATGATACAAATGTTCTTTATCCATGTTACGGGAGGAGTTGAAATGGTGCTGCTGATAGTCATGGCATATGATAGGTACACTGCGATCTGCAAGCCTCTCCACTATCCAACTATTATGAATCCCAAAATGTGC
ATGCTTTTGGTAGCAGCAGCTTGGGTCATTGGGGTGATTCATGCTATGTCTCAGTTTGTTTTTGTCATAAATTTACCCTTCTGTGGCCCTAATAATGTGGGGAGCTTTTATTGTGATTTTCCTCGGGTTATTAAACTTGCATGCATGGACACTTACGGGCTAGAATTTGTGGTCACTGCCAACAGTGGATTCATATCTATGGGCACCTTCTTTTTCTTAATTGTATCATACATTTTTATTCTGGTCACTGTCCGACGACATTCCTCAAATGATTTATCCAAAGCGTTCTTCACTTCGTCGGCTCACATCACCGTAGTGGTTTTGTTTTTTGCTCCATGCATGTTTCTCTACGTGTGGCCTTTCCCTACTAAGTCATTGGATAAATTTTTTGCCATCATGAACTTTGTGGTCACCCCTGTCTTAAATCCTGCCATCTACACTTTAAGGAACAAAGATATGAAGTTTGCAATGAGAAGGCTGAATCAACATATTTTAAATTCTATGGAGACGACATAACAGATTTGGTTGATGAGAGCACAGGATAAATGCCATGGACCATCAAGACTCCTGTGATCACCATGATCACTATGGAACGCGCACATTTTTAGTATTGCCTGAAAAAACTGAAAAATCTGCAAAAAGGATGCATTAAATCTAAGAATTGTATTTCAGATAAAGTTGCAACATTTTTTGTTAATCATAAAAAGTATGTATTTCTATCTAATGTGTGTATCTAATTAACAGCAATGACTATCTTTAATTTTGATGTAGTTATTTTATATCTGTATATAAGCACATACACATATATATGACCTAGGTTTATTTATCAGTATTTTCATGCTGATAATAAGCATCACTGGAAATTAATTTTCTTATGGAAATTATGGGGATCCAATGGATAAAATATGAGTTTATATAAATTAGTAAATGCCAAAATCAAGGAAGAAACAATTTTTATTTTAATTGTACTTTAAGTTAGATAAATGGTA
AGGTCAACAGCTTGTTACAACCCTTAAGTATTATTTTCAGGCTGATTGTCAATATGTTTTGTACAatgttctcacttataggtgggaattgaa
+
+a score=104160
+s hg18.chr1 54316 1163 + 247249719 caatgagaacacatggacacaggaaggggaacatcacacaccggggcctgttgtggggtggggggaagggggagggatagcattaggagatataactagtgttaaatgacgagttaatgggtgcagcacacccacatggcacatgtatacatatgtaactaacctgcacattgtgcacatgtaccctagaacttaaagtataataa--aaaaaaaTAGACTCTAGTACTCTGTATTATGCAAAATTTGTCTATGTTACACTTTTTTAACAACACAATCCTATTGCCCTTGAAATCTTCTTCAAAGCATTTCTCGAGTCACTCTTAAAAAGCATCTACAACCTAAAAGTATAGGAAGAGATTTATTTCCTGGAGAAGAGACCCCATTGAGATCTTAAAAGCACATTTAATGTGCCTGTGCTTAACTTAAGGT----GCTTAGGACAAAGAAGGCGATTGACATCTTTCAGGTAAAACCTGGTAAGTTTGGTGGTCAAGGAACACAACTGAGACATCACTTGGATGTATTCCTATGACTATTTTAAGAAACATAAATTGTGGTGACTCACTCAGCTCACTTTTAACTACTGCATGGTAATTAAAGATGCAAAATAAAATAAGTTACAAGAAGTGAGGTTTTTTATTGGTTAAAGCAATTTTTCTATATTTTCTCCGCAAGTTGGTCATAAAAGTTCTAAGCATTCCTCTTTTTATAAAATCGAAGCATTATTACTTACTCTCTTGTTAACCTATCTGGATTTTAATTTTGTAACTTTATTATATTTGTTTTGCTGTGATTCTTTAAAAAGCACCTTTAGACTCAGTGAGATAGCAAAAATATCCAAATAGGCCAAAAAATTGTGGCAATGTCCTCTCACTCAGGAAAATTCTGTGTGTTTTCTCTAATGGCCAAGGGAAAACTTGTGAGACTATAAAAGTTAGTCTCAGT
ACACAAAGCTCAGACTGGCTATTCCCAGATCTCTTCAGGTACATCTAGTCCATTCATAAAGGGCTTTTAATTAACCAAGTGGTTTACTAAAAAGGACAATTCACTACATATTATTCTCTTACAGTTTTTATG-----------------------------------CCTCATTCTGTGAAAATTGCTGTAGTCTCTTCCAGTTATGAAGAAGGTAGGTGGAAACAAAGACAAAACACATATATTAGAAGAATGAA
+s panTro2.chrUn 9720505 1203 + 58616431 caatgagaacacatggacacaggaaggggaacatcacacaccggggcctgttgtggggtgggggaaggggggagggatagcattaggagatatacctaatgttaaatgacgagttaatgggtgcagcacacccacatggcacatgtatacatatgtaacaaacctacacattgtgcacatgtaccctagaacttaaagtataacaacaaaaaaaaaaGACTCCAGTACTCTGTATTATGCAAAATTTGTCTATGTTACACTTTTTTAACAACACAATCCTATTGCCCTTGAAATCTTCTTCAAAGCATTTCTCGAGTCACTCTTAAAAAGCATCTACAACCTAAAAGTATAGGAAGAGATTTATTTCCTGGAGAAGAGACTCCATTGAGATCTTAAAAGCACATTTAATGTGCCCGTGCTTAACTTAAGGTAGGTGCTTAGGACAAAGAAGACGATTGACATCTTTCAGGTAAAACCTGGTAAGTTTGGTGGTCAAGGAACACAACTGAGACATCACTTGGATGTATTTCTATGACTATTTTAAGAAACATAAATTGTGGTGACTCACTCAGCTCACTTTTAACTACTGCATGGTAATTAAAGATGCAAAATAAAATAAGTTACAAGAAGTGAGGTTTTTTATTGGTTAAAGCAATTTTTCTATATTTT-TCCGCAAGTTGGTCCTAAAAGTTCTAAGCATTCCTCTTTTTATAAAATCGAAGCATTATTACTTACTCTCTTGTTAACCTATCTGGATTTTAATTTTGTAACTTTATTATATTTGTTTTGCTGTGATTCTTTAAAAAGCACCTTTAGACTCAGTGAGATAGCAAAAATATCCAAATAGGCCAAAAAATTGTGGCAATGTCCTCTCACTCAGGAAAATTCTGTGTGTTTTCTCTAATGGCCAAGGGAAAACTTGTGAGACTATAAAAGTTAGTCTCAGT
ACACAAAGCTCAGACTGGCTATTCCCAGATCTCTTCAGGTACATCTAGTCCATTCATAAAGGGCTTTTAATTAACCAAGTGGTTTACTAAAAAGGACAATTCACTACATATTATTCTCTTACAGTTTTTATGCTTCAAGGCAGTGCAAATAAAGGGAAATTTGTACTCCTCATTCTGTGAAAATTGCTGTAGTCTCTTCCAGTTATGAAGAAGGTAGGTGGAAACAAAGATAAAACAAATATATTAGAAGAATGAA
+
+a score=43935
+s hg18.chr1 55740 675 + 247249719 TCTTTCCCCAGGTCCGGTGTTTTCTTACCCACCTCCTTCCCTCCTTTTTATAATACCAGTGAAACTTGGTTTGGAGCATTTCTTTCACATAAAGGTACAaatcatactgctagagttgtgaggatttttacagcttttgaaagaataaactcattttaaaaacaggaaagctaaggcccagagatttttaaatgatattcccatgatcacactgtgaatttgtgccagaacccaaatgcctactc-----------------------------------ccatctcactgaGACTTACTATAAGGACATAAGGCatttatatatatatatattatatatactatatatttatatatattacatattatatatataatatatattatataatatatattatat-tatataatatataatataaatataatataaattatattatataatatataatataaatataatataaattatataaatataatatatattttattatataatataatatatattatataaatataatatata---aattatataatataatatatattatat-aatata--atatattttattatataaatatatattatatt------atataatatatattttattatataatatatattatatatttatagaatataatatatattttattatataatatatattatataatatatattatatttatatataacat
+s panTro2.chrUn 9721736 704 + 58616431 TCTTTCCTCAGGTCCGGTGTTTTCTTACCCACCTCCTTCCCTCCTTTTTATAATACCAGTGAAACTTGGTTTGGAGCATTTCTTTCACATAAAGGTACAaatcatactgctagagttgtgaggatttttagagcttttgaaagaataaactcattttaaaaacaggaaagctaaggcccagagatttttaaatgatattcccatgatcacactgtgaatttctgccagaacccaaatgcctactcccaatatatattatataaatataacatatattttaCCATCTCACTGAGACTTACTATAAAAACATAATACATTTTtatatatatatataatatatataata----taaatataatacatattat-tatattatatatattatataa---atattatatatatttattatat--tatatatattatataa---atataatatattttattatataaatataatatatattatctaaatataatatatattttattatataatgt--tatatattatctaaatataatatatattttattatataa-atataatatattatctaaatataatatatattttattatataaatataatatatattatctaaatataatatatattttattatata--atataatatatattatctaaatataatatatattttattatatga-atataatatatattatatattatatttatatttattat
+
+a score=772400
+s hg18.chr1 56415 8433 + 247249719 atattattatataaaatatgtataatatatattatataaatatatttatatattatataaatatatatattatatataatTCTAATGGTTGAATTCCAAGAATAATCTATGGCATGAAAGATTTTACCTGTCAACAGTGGCTGGCTCTTCATGGTTGCTACAATGAGTGTGTAAGATTCTGAAGGACTCCTTTAATAAGCCTAAACTTAATGTTCAACTTAGAATAAATACAATTCTTCTAATTTTTTTTGAATAATTTTTAAAAAGTCAGAAATGAGCTTTGAAAGAATTATGGTGGTGAAGGATCCCCTCAGCAGCACAAATTCAGGAGAGAGATGTCTTAACTACGTTAGCAAGAAATTCCTTTTGCTAAAGAATAGCATTCCTGAATTCTTACTAACAGCCATGATAGAAAGTCTTTTGCTACAGATGAGAACCCTCGGGTCAACCTCATCCTTGGCATATTTCATGTGAAGATATAACTTCAAGATTGTCCTTGCCTATCAATGAAATGAATTAATTTTATGTCAATGCATATTTAAGGTCTATTCTAAATTGCACACTTTGATTCAAAAGAAACAGTCCAACCAACCAGTCAGGACAGAAATTATCTCACAATAAAAATCCTATCGTTTGTACTGTCAATGATTAGTATGATTATATTTATTACCGTGCTAAGCAGAAGAGAAATGAAGTGAATGTTCATGATTTATTCCACTATTAGACTTCTCTTTATTCTTAAAAATATTTAAGATCACTAAATTTTTATAGGACTTTAAAAACAGTAATGTGCTGCTTTGAGTGTGTAGGACTAAGAAATGGGATTCAGAGTAGTAAAGAGAAAAGTGGAATTTCCAAGCACTATGAATTACTGTTCTTTAAAAAACAGCAAAAATCAAATAACAGTATTCCTCCAAAAAAGATGGCAAGTGTAAACTCTATACCTTC
ATGTCTCCCGTGGAATGTTAGTGATCAATTTCCACTTCTCTCTTTTACATCTTACTTGCCCATTAACTCTTATACCTAATCCAAAGATTGTTAATATGGCTATGTCTCACTTTCAGGACACCTTTTATTTGTTACTTCTCTTCACTGCAAAACTTCTTGAAACAGTACTTATTTTCTCTCCTCCATACACAATTGAAATGGCTCTCAACTCATGCCCAGAAGTCAGTGTTCAGTCTCTCACCTGGCAGATAGCAACTTACAAAGATGCCCCAACAATACCTCCTTGTGTCTAGACAGTCATCATTATCCTTTACCTTTTTCTGTATTTATTTCTGCTCCTAAAAGGGATCTCTATGTAAAGTATTGTTATACTAGTGCTTGTTATAATTATTATCAGAGTTAAAGCCATCACAATGTTCCCAATTACTTAAAGACATTGGAATAACATTTTTTTTATTTTCCACATCTTGCCAAAAAATATTTTGTTATCAGTACCTTaataatggctattatatattgaccattactatttgctagaaaatttatatacctggtcgtatccaatcctcacagaacttctataaagttgtgctattatcacctatattttccagatgtggccgtaagactgaaatcacttaggtgacttgtctaaggtcattcagatacatagtagataacccaggatttgaacacaggcctcctagcacacaagctcatatcttaactactttaatacgttgctcGATGGGATCTTACAGGTCTTCATTCACCCCTTTCCTGCTCACACAACCACAACCTGCAGCTATTACCTATTGTTAGGCTTAAAATAATTACTTGGCTTCATTTCCAAGCTCCCTCCCTTCCAATTCACATTGAGTCCAGAGCTAAATTAAACAATCATTCAAAATTTTTCAGTAGTTCTTGTCTCTATAATAAAACAGAAATGCTTTAGAAAGCATTCCAAAATCTCTTACCAGTTTTATCTC
CTATGAAAGTCCTTCACactttctctcatttaaactttattgcattttcctcactttttctcacttcacttttgaattccctattcttttatcctctgttaatttttaagtattatatttgtgatattattttttctttttttctattttttatctttcatttcattttggcctatttttttctcttAAGAACTTTAATATCACCAAATAACATGTGTGCTACAAACTGTTTTGTAGTTCAAAGAAAAAGGAGATAAACATAGAGTTATGGCATAGACTTAATCTGGCAGAGAGACAAGCATAAATAATGGTATTTTATATTAGGAATAAACCTAACATTAATGGAGACACTGAGAAGCCGAGATAACTGAATTATAAGGCATAGCCAGGGAAGTAGTGCGAGATAGAATTATGATCTT-----GTTGAATTCTGAATGTCTTTAAGTAATAGATTATAGAAAGTCACTGTAAGAGTGAGCAGAATGATATAAAATGAGGCTTTGAATTTGAATATAATAATTCTGACTTCCTTCTCCTTCTCTTCTTCAAGGTAACTGCAGAGGCTATTTCCTGGAATGAATCAACGAGTGAAACGAATAACTCTATGGTGACTGAATTCATTTTTCTGGGTCTCTCTGATTCTCAGGAACTCCAGACCTTCCTATTTATGTTGTTTTTTGTATTCTATGGAGGAATCGTGTTTGGAAACCTTCTTATTGTCATAACAGTGGTATCTGACTCCCACCTTCACTCTCCCATGTACTTCCTGCTAGCCAACCTCTCACTCATTGATCTGTCTCTGTCTTCAGTCACAGCCCCCAAGATGATTACTGACTTTTTCAGCCAGCGCAAAGTCATCTCTTTCAAGGGCTGCCTTGTTCAGATATTTCTCCTTCACTTCTTTGGTGGGAGTGAGATGGTGATCCTCATAGCCATGGGCTTTGACAGATATATAGCAATATGCAAGCCCCTACACTACACTACAAT
TATGTGTGGCAACGCATGTGTCGGCATTATGGCTGTCACATGGGGAATTGGCTTTCTCCATTCGGTGAGCCAGTTGGCGTTTGCCGTGCACTTACTCTTCTGTGGTCCCAATGAGGTCGATAGTTTTTATTGTGACCTTCCTAGGGTAATCAAACTTGCCTGTACAGATACCTACAGGCTAGATATTATGGTCATTGCTAACAGTGGTGTGCTCACTGTGTGTTCTTTTGTTCTTCTAATCATCTCATACACTATCATCCTAATGACCATCCAGCATCGCCCTTTAGATAAGTCGTCCAAAGCTCTGTCCACTTTGACTGCTCACATTACAGTAGTTCTTTTGTTCTTTGGACCATGTGTCTTTATTTATGCCTGGCCATTCCCCATCAAGTCATTAGATAAATTCCTTGCTGTATTTTATTCTGTGATCACCCCTCTCTTGAACCCAATTATATACACACTGAGGAACAAAGACATGAAGACGGCAATAAGACAGCTGAGAAAATGGGATGCACATTCTAGTGTAAAGTTTTAGATCTTATATAACTGTGAGATTAATCTCAGATAATGACACAAAATATAGTGAAGTTGGTAAGTTATTTAGTAAAGCTCATGAAAATTGTGCCCTCCATTCCCATATAATTTAGTAATTGTCTAGGAACTTCCACATACATTGCCTCAATTTATCTTTCAACAACTTGTGTGTTATATTTTGGAATACAGATACAAAGTTATTATGCTTTCAAAATATTCTTTTGCTAATTCTTAGAACAAAGAAAGGCATAAATATATTAGTATTTGTGTACACCTGTTCCTTCCTGTGTGACCCTAAGTTTAGTAGAAGAAAGGAGAGAAAATATAGCCTAGCttataaatttaaaaaaaaatttatttGGTCCATTTTGTGAAAAACATAAAAAAAGAACTGTCACATCTTAATTTAAAAAATATATGCTTAGTGGTAAGGAGATATATGTCAACTTTTAAGA
GGTTGAAAAACAAACGCCTCCCATTATAAGTTTATACTTCACCTCCCACCACTATAACAACCCAGAATCCATGAGGGCATTATCAGGAGTGAGTGGAAGAGTAAGTTTGCCAATGTGAAATGTGCCTTCTAGGTCCTAGACGTCTGTGGTATAACTGCTCATAAGCAGTAGAAAGAATTTAGAGGGATCCAGGCTCTCATCACGTTGGCACAAAGTATATTACTTGGATCCATCTATGTCATTTTCCATGGTTAATGTTTaaaagcacaggctttaaagtaaaaaacaaagagctggattcaactctactgactcttattaatcatgattttgggcacattacgtagctttcatgagctttagtttctacatttataaacaggagattatacctattatgcatggttattatgaaggaaaatgacaaaatagatataaatcaaatagcccacttcgagacatattaagcatgaataaacattagatactattaAAATCCTATATATTAACAAAGCCAAAAGTTTCAAACTTTACTTTTTCCCAACATTCTTGTGAAATATGACACATCCCAATCTTAACAGATGCTCATTTGGGATACTGTACTTGTGAGTGGAAGTGTGTATATTTGTGTGCAAGTGTGTACTCATATACTTCCACCTTACCACCCTAGAAAGGCATGATGAAAATTTAAGATAGAAGGAAAATATAAATTGAAAAAAAAAAACCTTAACAAATGATTCTGACAAATATCTTCTCTTTCCAGGGAGAATCACTGAGCCAGAATAAAATTGAACACTAAATATTCTAAGAAAAAAGGAATCTAGTTTGTCAAAATGTGACTTGAATTAATAGATAAGGAGAGTCAGATGATAAGAGGGTCAAAATTATGTTTATCTTAGGAAAAGTAGAATAGAAAATTTATAAGCAGATTAAAAACACATAATAAAAGTAGTAAATAATAATGACAGTATCTCAAATcagtgcagggg
ggaaaggcctactaatgtgatggtgggataattggatagcaatatgggaaaagatatatttaatttatttgctacaccaaatgccaggacaatctctaagtgaattcaagacataactcttttttcaaaaaaactatgcaaatattaaaagaaaacaagttaatgtttttataatctatgaatatggtaaagatGGATAACATTGACTATCAAATTAATTTTTAATGCGTAATAAAACTATGAGAAAATTTAAAAGTGAGAAGAAACTACTTGTAACTCACATAATAGActagtacttctaacacatagggaacttctaaaacaaaacccaaaatattaataggaaaatgggcaaaacagttaaacttacagttcataCATAAGGAGAATCAGTCTTTTTTTTTTTTTTTACAGTTGTAGGCAGAAAACTTTTATTTTTCATTTATTTGTAAAATTTACCCCTAATTTATTCATAATTCATTTAACTGCTAAGGGCATTAATGTGTACAACGCCATGGGAGAAACCAGTATATTCAGAATTTCTCCTGAAATTTGACCAGAAGTTATGGGCATCCCTCCCCTGGGAAGGAGGCAGGCAGAAAAGTTTGGAATCTATGTAGTAAAATATGTTACTCTTTtatatatatacatatatgtgtgtatatgtgtatatatatatacac--------------acatatatacatacatacatacatacatatTATCTGAATTAGGCCTGGTCttttttaatactttaagttctgggatacatgtgcagaatgtacaggtttgttacacaggtatacacctgccatggttgtttgctgcacccatcaactcaccatctacattaggtatttctcctaacgttatccctctccttgcctcccacctcccgacaggccctggtgtgtgatattcccttccctgtgcccatatgttctcattggtcaactcccatttatgagtgagaacatgcggtgt
ttggttttctgttcttgtgttagtttgcggagaatgatggtttccagcttcatccatgtccctgcaaaggacatgaactcattcttttttatggctgcaagaaatgcaaatcaaaaccacaatgagatgccatctcacaccagttagaatggcaatcattaaaaagtcaggaaacaatagatgctggagaggatgtggagaaataggaatgcttttacactgttggtgggagcgtacattagttcaaccattgtggaagacagtgtggtgtttcctcaaggatctaaaactagaaataccatttgacccagcaatcccattactgggtatatacccaaacgattgtaagtcattctactacaaagacacatgcacaggtatgtttattgcagcactattcacaatagggaagacttggaaccaacccaaatgcccgtcaatgttagactagataaaatgtggcacatagacCTGGTCTTAAAATCAAGAACAGAGATTGTTACTTTTACATCCATTCCTAATTGATAAACCATTCAGTTATACCACATCTTAGCTTCTGGACTACAATGACCATATTTGGGGttttctttctaatttcattataggttcagagggtacatgtgcaggtttgagacaaaggtatattgcatgatactaaggtttggagtacaaatgattccacctcccaggtagcaagaataatacccaatatgtagtttttcaactctttcccctcttcctccatcctccctctgctactctgtggtgtctgtttttctcatctttatgtccatgtgtactcgatgtttagctcccccttgttaggtgagaacatgtggtatttggttttctgtttcagtgttaattcacttaggataatggcctccaactgcattcatgctgctgcaaaggatgtgactttcttcttattagctgcatatattttgtggtggatttgtaccacatttactttatctagtccaaagttg
ttgggcacccaggtggattccatgtctttgctattgtgaatagcactgggacaacccatacaagttcatgtgtctttttggtaaaacaatgtattttcctttgggcatatatgcggtgatggaattgctggatcgagtggtagtttaactcttagttctttgagaaatccccagactgttctccacagtggctggactaagttgcattcccaccagcagtgtagaagtgttccccattctctgtagcctcaccagcacatgttAAACTATCTttaaatatatgaaaaaaatgttcaagtctctcagattaagatgcatgcaaagtaaaatgatacttaaatatcagttctaacctataaaatatcaaatatctgacctcaatatttgataatccaacctgttgatgaagctgtagagagaggcaccctTtttttttttttt-----aattatactttaagttttagggtacatgtgcaccttgtgcaggttagttacatatgtatacatgtgccatgctggtgcgctgaacccactaactcgtcatctagcattaggtatatctcccaatgctatccctcccccctccccccaccccacaacagtccccagagtgtgatattccccttcctgtgtccatgtgatctcattgttcacttcccacctatgagtgagaatatgcggtgtttggttttttgttcttgcgatagtttactgagaatgatgatttccagtttcatccatgtccctacaaaggacatgaactcatcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaataatgccgcaataaacatacgtgtgcatgtgtctttatagcagcatgatttatagtcctttgggtatatacccagtaatgggatggctgggtcaaatggtatttccagttcg
agatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaatgattgccattctaactggtgtgagatgatatctcattgtggttttgatttgcatttctctgatggccagtgatgatgagcattttttcatgtgttttttggctgcatagatgtcttcttttgagaagtgtctgttcatgtccttcgcccacttgttgatggggttgtttgtttttttcttgtaaatttgtttgagttcattgtagattctggatattagccctttgtcagatgagtaggttgcaaaaattttctcccattttctgggttgcctgttcactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttgtcttttgttgccattgcttttgTCccaccgatcccacagaaatacaaactaccatcagagaatactacaaacacctctacgcaaataaactagaaaatctagaagaaatgga
+s panTro2.chrUn 9723596 8444 + 58616431 atattattatataaaatatgtac--tatatattatataaatatatttatatattatataaatatatatattatatataATTCTAATGGTTGAATTCCAAGAATAATCTATGGCATGAAAGATTTTACCTGTCAACAGTGGCTGGCTCTTCATTGTTGCTACAATGAGTGTGTAAGATTCTGAAGAACTCCTTTAATAAGCCTAAACTTAATGTTCAACTTAGAATAAATACAATTCTTCTAAATTTTTTTGAATAATTTTTGAAAAGTCAGAAATGAGCTTTGAAAGAATTATGGTGGTGAAGGATCCCCTCAGCAGCACAAATTCAGGAGAGAGATGTCTTAACTACGTTAGCAAGAAATTCCTTTTGCTGAAGAATAGCATTCCTGAATTCTTACTAACAACCATGATAGAAAGTCTTTTGCTACAGATGAGAACCCTCGGGTCAACCTCATCCTTGGCATATTTCATGTGAAGATATAACTTCAAGATTGTCCTTGCCTATCAATGAAATGAATTAATTTTATGTCAATGCATATTTAAGGTCTATTCTAAATTGCACACTTTGATTCAAAAGAAACAGTCCAACCAACCAGTCAGGACAGAAATTATCTCACAATAAAAATCCTATCATTTGTACTGTCAATGATTAGTATGATTATATTTATTACCGTGCTAAGCAGAAGAGAACTGAAGTGAATGTTCATGATTTATTCCACTATTAGACTTCTCTTTATTCTTAAAAATATTTAAGATCACTAAATTTTTATAGGACTTTAAAAACAGTAATGTGCTGCTT-GAGTGTGTAGGACTAAGAAATGGGATTCAGAGTAGTAAAGAGAAAAGTGGAATTTCCAAGCACTATGAATTACTGTTCTTTAAAAAACAGCAAAAAACAAATAACAGTATTCCTCCAAAAAAGATGGCAAGTGTAAACTCTATACCTTC
ATGTCTCCCGTGGAATGTTAGTGATCAATTTCCACTTCTCTCTTTTACATCTTACTTGCCCATTAACTCTTATACCTAATCCAAAGATTGTTAATATGGCTATGCCTCACTTTCAGGACACCTTTTATTTGTTACTTCTCTTCACTGCAAAACTTCTTGAAACAGTACTTATTTTCTCTCCTCCATACACAATTGAAATGGCTCTCAACTCATGCCCAGAAGTCAGTGTTCAGTCTCTCATCTGGCAGATAGCAACTTACAAAGATGCCCCAACAATACCTCCTTGTGTCTAGACAGTCATCATTATCCTTTACCTTTTTCTGTATTTATTTCTGCTCCTAAAAGGGATCTCTATGTAAAGTATTGTTATACTAGTGCTTGTTATAATTATTATCAGAGTTAAAGCCATCACAATGTTCCCAATTACTTAAAGACATTGGAATAACATTTTTTTTATTTTCCACATCTTGCCAAAAAATATTTTGTTATCAGTACCTTaataatggctattatatattgaccattactatttgctagaaaatttatatacctggtcgtatccaatcctcacagaacttctataaagttgtgctattatcatctatattttccagatgtggccataagactgaaatcacttaggtgacttgtctaaggtcattcagatacatagtagataacccaggatttgaacacaggcctcctagcacacaagctcatatcttaactactttaatacgttgctcGATGGGATCTTACAGGTCTTCATTCACCCCTTTCCTGCTCACACAACCACAACCTGCAGTTATTACCTATTGTTAGGCTTAAAATAATTACTTGGCTTCATTTCCAAGCTCCCTCCCTTCCAATTCACATTGAGTCCAGAGCTAAATTAAACAATCATTCAAAATTTTTCAGTAGTTCTTGTCTCTATAATAAAACAGAAATGCTTTAGAAAGCATTCCAAAATCTCTTACCAGTTTTATCTC
CTATGAAAATCCTTCACactttgtctcatttaaaatttattgcattttcctcactttttctcacttcacttttgaattccctattcttttatcctctgttaatttttaagtattatatttgtgatattattttttctttttttctattttttatctttcatttcattttggcctatttttttctcttAAGAACTTTAATATCACCAAATAACATGTGTGCTACAAACTGTTTTGTAGTTCAAAGAAAAAGGAGAAAAACATAGAGTTATGGCATAGACTTAATCTGGCAGAGAGACAAGCATAAATAATGGTATTTTATATTAGGAATAAACCTAACATTAATGGAGACACTGAGAAGCCGAGATAACTGAATTATAAGGCATAGCCAGGGAAGTAGTGCGAGATAAAATTATGATCTTTGGTTGTTGAATTCTGAATGTCTTTAAGTAATAGATTATAGAAAGTCACTGTAAGAGTGAGCAGAATGATATAAAATGAGGCTTTGAATTTGAATATAATAATTCTGACTTCCTTCTCCTTCTCTTCTTCAAGGTAACTGCAGAGGCTATTTCCTGGAATGAATCAACGAGTGAAACGAATAACTCTATGGTGACTGAATTCATTTTTCTGGGTCTCTCTGATTCTCAGGAACTCCAGACCTTCCTATT-ATGTTGTTTTTTGTATTCTATGGAGGAATCGTGTTTGGAAACCTTCTTATTGTCAGAATAGTGGTATCTGACTCCCACCTTCACTCTCCCATGTACTTCCTGCTAGCCAACCTCTCACTCATTGATCTGTCTCTGTGTTCAGTCACAGCCCCCAAGATGATTACTGACTTTTTCAGCCAGCGCAAAGTCATCTCTTTCAAGGGCTGCCTTGTTCAGATATTTCTCCTTCACTTCTTTGGTGGGAGTGAGATGGTGATCCTCATAGCCATGGGCTTTGACAGATATATAGCAATATGCAAACCCCTACACTACACTACAAT
TATGTGTGGCAACGCATGTGTCGGCATTATGGCTGTCGCATGGGGAATTGGCTTTCTCCATTCGGTGAGCCAGTTGGCCTTTGCCGTGCACTTACCCTTCTGTGGTCCCAATGAGGTCGATAGTTTTTATTGTGACCTTCCTAGGGTAATCAAACTTGCCTGTACAGATACCTACAGGCTAGATATTATGGTCATTGCTAACAGTGGTGTGCTCACTGTGTGTTCTTTTGTTCTTCTAATCATCTCATACACTATCATCCTAATGACCATCCAGCATCGCCCTTTAGATAAGTCGTCCAAAGCTCTGTCCACTTTGACTGCTCACATTACAGTAGTTCTTTTGTTCTTTGGACCATGTGTCTTTATTTATGCCTGGCCATTCCCCATCAAGTCATTAGATAAATTCCTTGCTGTATTTTATTCTGTGATCACCCCTCTCTTGAACCCAATTATATACACACTGAGGAACAAAGACATGAAGACGGCAATAAGACGGCTGAGAAAATGGGATGCACATTCTAGTGTAAAGTTTTAGATCTTATATAACTGTGAGATTAATCTCAGATAATGACACAAAATATAGTGAAGTTGGTAAGTTATTTAGTAAAGCTCATGAAAATTGTGCCTTCCATTCCCATATAATTTAGTAATTGTCTAGGAACTTCCACATACATTGCCTCAATTTATCTTTCAACAACTTGTGTGTTATATTTTGGAATACAGATACAAAGTTATTATGCTTTCAAAATATTCTTTTGCTAATTCTTGGAACAAAGAAAGGCATAAATATATTAGTATTTGTGTACACCTGTTCCTTCCTGTGTGATCCTAAGTTTAGTAGAAGAAAGGAGAGAAAATATAGCCTAGCttataaa-ttaaaaaaaaatttatttGGTCCATTTTGTGAAAAACATAAAAAAAGAACTGTCACATCTTAATTTAAAAAATACATGCTTAGTGGTAAGGAGATATATGTCAACTTTTAAGA
GGTTGAAAAACAAACGCCTCCTATTATAAGTTTATACTTCACCTCCCACCACTATAACAACCCAGAATCCATGAGGGCATTATCAGGAGTGAGTGGAAGAGTAAGTTTGCCAATGTGAAATGTGCCTTCTAGGTCCTAGACATCTGTGGTATAACTGCTCATAAGCAGTAGAAAGAATTTAGAGGGATCCAGGCTCTCATCATGTTGGCACAAAGTATATTACTTGGATCCATCTATGTCATTTTCCATGGTTAATGTTTaaaagcacaggctttaaagtaaaaaacaaagagctggattcaactctactgactcttattaatcatgattttggacacattatgtagctttcatgagctttagtttctacatttataaacaggagattatacctattatgcatggttattatgaaggaaaatgacaaaatagatataaatcaaatagcccactttgagacatattaagcatgaataaacattagatactattaAAATCCTATATATTAACAAAGCCAAAAGTTTCAAACTTTACTTTTTCCCAACATTCTTGTGAAATATGACACATCCCAATCTTAACAGATGCTCACTTGGGATACTGTACTTGTGAGTGGAAGTGTGTATATTTGTGTGCAAGTGTGTACTCATACACTTCCACCTTACCACCCTAGAAAGGCATGATGAAAATTTAAGATAGAAGGAAAATATAAATTG-AAAAAAAAAACCTTAACAAATGATTCTGACAAATATCTTCTCTTTCCAGGGAGAATCACTGAGCCAGAATAAAATTGAACACTAAATATTCTAAGAAAAAAGGAATCTAGTTTGTCAAAATGTGACTTGAATTAATAGATAAGGAGAGTCAGATGATAAGAGGGTCAAAATTATGTTTATCTTAGGAAAAGTAGAATAGAAAATTTATAAGCAGATTAAAAACACATAATAAAAGTAGTAAATAATAATGACAGTATCTCAAATcagtgcagggg
ggaaaggcctactaatgtgatggtgggataattggatagcaatatgggaaaagatatatttaatttatttgctacaccaaatgccaggacaatctctaagtgaattcaagacataactcttttttcaaaaaaactatgcaaatattaaaagaaaacaagttaatgtttttataatctatgaatatggtaaagatGGATAACATTGACTATCAAATTAATTTTTAATGCGTAATAAAACTATGAGAAAATTTAAAAGTGAGAAGAAACTACTTATAACTCACATAATAGActagtacttctaacacatagggaacttctaaaacaaaacccaaaatattaataggaaaatgggcaaaacagttaaacttacagttcataCATAAGGAGAATCAGTC--TTTTTTTTTTTTTACAGTTGTAGGCAAAAAACTTTTATTTTTCATTTATTTGTAAAATTTACCCCTAATTTATTCATAATTCATTTAACTGCTAAGGGCATTAATGTGTACAACGCCATGGGAGGAACCAGTATATTCAGAATTTCTCCTGAAATTTGACCAGAAGTTATGGGCATCCCTCCCCTGGGAAGGAGGCAGGCAGAAAAGTTTGGAATCCATGTAGTAAAATATGTTACTCTTTtatatatatacatatatgtgtgtatatgtgtatatatatatacacacacacatatacatacatacatacatacatacatacatacatatTATCTGAATTAGGCCTGGTCttttttaatactttaagttctgggatacatgtgcagaatgtacaggtttgttatacaggtatacacgtgccatggttgtttgctgcacccatcaactcatcatctacattaggtatttctcctaacgttatccctctccttgcctcccaccccccgacaggccctggtgtgtgatattcccttccctgtgcccatatgttctcattggtcaactcccacttatgagtgagaacatgcagtgt
ttggttttctgttcttgtgttagtttgcggagaatgatggtttccagcttcatccatgtccctgcaaaggacatgaactcattcttttttatggctgcaagaaatgcaaatcaaaaccacaatgagatgccatctcacaccagttagaatggcaatcattaaaaagtcaggaaacaatagatgctggagaggatgtggagaaataggaatgcttttacactgttggtgggagcgtacattagttcaaccattgtggaagacagtgtggtgtttcctcaaggatctaaaactagaaataccatttgacccagcaatcccattactgggtatatacccaaacgattgtaagtcattctactataaagacacatgcacaggtatgtttattgcagcactattcacagtagggaagacttcgaaccaacccaaatgcccatcaatgttagactagataaaatgtggcacatagacCTGGTCTTAAAATCAAGAACAGAGATTGTTACTTTTACTTCCATTCCTAATTGATAAACCATTCAGTTATACCACATCTTAGCTTCTGGACTACAATGACCATATTTGGGGttttctttctaatttcattataggttcagagggtacatgtgcaggtttgagacaaaggtatattgcatgatactaaggtttggagtacaaatgattccacctcccaggtagcaagaataatacctaatatgtagtttttcaactctttcccctcttcctccatcctccctctgctgctctgtggtgtctgtttttctcatctttatgtccatgtgtactcgatgtttagctcccccttg-taggtgagaacatgtggtatttggttttctgtttcagtgttaattcagttaggataatggcctccatctgcattcatgctgctgcaaaggatgtgactttcttcttattagctgcatatattttgtggtggatttgtaccacatttactttatctagtccaaagttg
ttgggcacccaggtggattccatgtctttgctattgtgaatagcactgggacaacccatacaagttcatgtgtctttttggtaaaacaacgtattttcctttgggcatatatgcggtgatggaattgctggatcgagtggtagtttaactcttagttctttgagaaatccccagactgttctccacagtggctgaactaagttgcattcccatcagcagtgtagaagtgttccccattctctgtagcctcaccagcacctgttAAACTATCTttaaatatatgaaaaaaa-gttcaagtctctcagattaagatgcatgcaaattaaaatgatacttaaatatcagttctaacctataaaatatcaaatatctgaccccaatatttgataatccaacctgttgatgaagctgtggagagaggcactctTTTTtttttttttttttaaattatactttaagatttagggtacatgtgcaccttgtgcaggttagttacatatgtatatatgtgccatgctggtgcgctgaacccactaactcgtcatctagcattaggtatatctcccgatgctatccctcacccctccccccaccccacaacagtccccagagtgtgatattccccttcctgtgtccatgtgatctcattgttcaattcctacctatgagtgagaatatgcggtgtttggttttttgttcttgtgatagtttactgagaatgatgatttccaatttcatccatgtccctacaaaggacatgaactcatcctttttaatggctgcatagtatgccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaataatgccgcaataaacatacgtgtgcatgtgtctttatagcagcatgatttatagtcctttgggtatatacccagtaatgggatggctgggtcaaatggtatttccagttct
agatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaatgattgccattctaactggtgtgagatggtatctcattgtggttttgatttgcatttctctgatggccagtgatgatgagcattttttcatgtgttttttggctgcataaatgtcttcttttgagaagtgtctgttcatgtccttcgcccactttttgatggggttgtttgtttttttcttgtaaatttgttttagttcattgtagattctggatattagccctttgtcagatgagtaggttgcgaaaattttctcccattttgtaggttgcctgttcactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttgtcttttgttgccatttgctttGTCccaccgatcccacagaaatac-aactaccatcagagaatactacaaacacctctacacaaat-aactag-aaatctagaagaaatgga
+
+a score=362262
+s hg18.chr1 66429 4062 + 247249719 aaaaatcaattcaagatggattaaagacttaaacgttagacctcaaaccataaaaaccctagaagaaaacctaggctttaccattcaggacataggcatgggcaaggacttcatgtctaaaacaccgagagaggcactcttatgcattgttggtgagaatacaaaatggtacaactcttggcaatatcttaaaaaatttacatggtactgacttttggtctagcaatcctacttctatcctaaagatatattggcaaaaatacaaaataattgatgcactcaagtctattcattgaagcattgtttttcatagtaaa---cggaaagtaggccgggcgtggtggctcatgcctgtgatcccagcattttgggaggctgaggcgggcagatcacttgaggccaggaattcaagaccagcgtggctaacatggcgaaaccccatctctaccaaaaatacaaaaattagctgggcgtggtggtgcacacttgtaattccagctacttgagaggctgaggtgggaggatcgcttgaacctgggaggcagaagtttcagtgagcccagaacgtgcctctgcactccagccaggatgacagagcaagactccatctcaaaaaaaaaaaaaaaaaaaaaggaaaataaccaaatgacaattagtgagtactacttgcaaaacttgtacgcaatagagtatgaagcaactataaaatgagagagaaatatctccaaatactactctaaagtaatctacaaggtataccttaactgaaaagaaacaaaaaagtgacaccagaatgctatttttatgttaaaacagggataaataCATTGGATTTACATGCatatataagtatatattttataaatgtttaaataaGCATACTTAAAATGGCAAAAACGTAATACATATATAATTTTCTTATGGCAGGAGGAGGAAACAGGGCAAGGC
ACAGGGATAAAAGTTATTCTGAATACATCTTATTTTATATTTTTGACTTTGAAATCCTGTAGCTGTTTTATGTAATATAAAAATGTAATTAAATTAACAGAAAAAAATTACAACTGCTAAAAATCAAGATCTGGCATTTTAATTAAGTTATAAAACATCGGAGAAAAGAATTGTTTCATGGGACACTAACATACAGACAAATTCATTTGGAACCCAATGAATTAATGGGCCTAAGATAACAACCAATAGAAGCTAAAATGACGAATAACTGTTTCAGAAGAAAACATATATGGAATGAATCAGCTGAAAATACCTGAACCTACTGATCAATTTTTATATCACATGAAGTGAATACACATAAAGTATAATATGGAGCACATAGAACCAACTAGAAATGAGCCTAATTGTTAAATATTCTCTATTTTATGAcaatatacaggaaatatgtcgaagagagaaacatgcaagaacaccgtagggtttaataagataatcacaaggtatggaatattcaacaggatgagtatcctggattattcagcaaatacacagagctaaaaagcaggagaaaggaattcatatatatttttaaaaactaaaaagatatattagctgatgcaactttgaaacttctttagatcctgattcaaatagagcaaatttaacaaatatatttgaaactattaaaataatttaaaaatgaccaagtatttgattatatcaaatatagacaataataaccttgaatgtacatggattaaatgtccacttaGGggctgggtgtggtggctcatgactataattccagcactttgggaggccaaggcagaaggattgcttgaggtcagaggttcaagtgcagcctggtcaacacagtgaaaccctatctctacaaaaaacaaacaaaaataaaaaaTT-AACtaattttaaaaaatatatatttCTTCtaaattctccacctgaaagatatagactgactgaatgaatt
ttaactatgatctgactatgtgcttccctgaacaaatgcactttacctgt-aaaacacatattaactaaaagaaaagagatggaaaaaggtattccatgaacagaaaccaaaatgagtaggagtagctatacttctgtcagacaaaacagactttaagtcaaaactagctttagaaaaaagacaaaaatgcttattatacaacgataaaggaatcaatccagaaagaggatataacaattttaaatatatatgcagccaacactggagcagccagattcataaagcaaatactactagatcaaaacagagaggtagactcaaatataataatagtgaaggacttcaacaccccactttcagcattaaacagatcatctaataagaaaaccaatctcgcagccctcaccctggagagtccacaggtaccaggggttggtctgaacccccagcacagagcacctgcctcacagaagagtggctgcatttttcttcctgcagttttcagtcctcacttctccttaccaagcagggccacctggcctgggactccggtacaactaccctgccccccacctgacgacttcaataagaagtagcccagcatttctccaaggaggaaataccagagtcaattcacaaccactgcaattgcagtggtaccaccataacagcccttgggctgcagaaggaactaagagtctagtcactacagtggcaccttcagcacaccacagccaccatacagagaggaatccagccccctcccctgggaacccccaccacccactccaccaggcacagcacccagctcataactgcagatcagttgccccacccacagctgagcttacctactggcagtggcccagactttccctagggagaggctcccagaggcaaacggcagcctctctgcccgtgtcacagcagcagttctatccatgctgtcctcaggcttggaaagaaacaaagcgcctgaaggctgcac
ctgaacttacagcatgccacagttcccatatggagaggagaccagtctctcctcccagtgagccctaaaccccctgatccccaacaagcagagccctaacctcacaccagcagtacagctgccccatcccccaggctgaacattcccagtaatagcagctccacctggagatggaacccccagggtcaactaaaagcccctctgccactgcctctacagtggtactacccctgctacccttgaactaacaaaggagcaaagaccccagtgctttatccacacctccaacaagctgcagtcgaccacaaagaagaaacacgtctgtctcccatgggtcctacccacaccccctgctgttcaccatggatgatagagtcaacagtgtgaaaacgaccatactgccaaaagcaacctacaaattcaatgcaattcccatcaaaataccaccatcattcttcacagaactagaaaaaacaaggctaaaattcacatggaaccaaaaaagagcccacatagccaaagcaagactaagcaaaaagaataaatctagaggcatcacattactcgacttcaaactatactataaggccatagtcaccaaaacagcatggtactggtataaaaataggcatatagaccaatggaatagaataaagaacccagaaataaagccaaatactttcagccaactgatctttgacaaagcaagcaaaaacataaagtggggaaaggacaccctattcaacaaatggtgctggtataattggcaagccacatgtagaagaatgcaactggatcctcatctctcaccttataaacaaatcaactcaagatggttcacagacttaaatctaagacctgaaaccataaaaattctagaagataagattggaaaaacccttctagacattggcttaggcaaagacttcacaatcaagaacccaaaagcaaacacaacaaaacaaagataaatagatgggacttaatta
aactgaaagccttctgcacatcaaaataaataatcagcagagtaaacagacaacccacagagtgggagaaaatcttcacaaactatgcatccaacagaggactaatatccagaatctacaaagaattggaacaaatcagcaagaaaaaaaac
+s panTro2.chrUn 9734145 4062 + 58616431 aaaaatcaattcgagagggattaaagaattaaacattggacttaaaaccataaaaaccctagaagaaaacctaggcattaccattcaggacataggcatgggcaaggacttcatgtttaaaacactgagagaggcccttttatgcattgttggtgagaatacaaaatggtacaactcttggcaatattttaaaaaatttacatggtactgacttttggtctagcaatcctacttttatcctaaagatatactggcaaaaatacaaaataattgatgcacacaagtttattcattgaagcattgtttttcatagtaaagaatggaaagtaggccgggtgtggtggctcatgcctgtaatcccagcattttgggaggctgaggtgggcagatcacttgaggccaggaattcaagaccagcgtggctaacatggcgaaaccccatctttaccaaaaatacaaaaattagccaggcatggtggtgcacacttgtaattccagctacttgagaggctgaggcgggaggatcgcttgaacctgggaggcagaggtttcagtgagcccagaacatgcctttgcactccagccaggatgacagagcaagactccatctcaagaaaaaaaaaaaaaaaaa-ggaaattaaccaaatgacaagtagtaagtactacttgcaaaacttgtacgcaatagagtatgaagcaaccataaaatgagtgagaaatatctccaaatactactctaaagtaatctacaaggtataccttaactgaaaagaaacaaaaaagtgacaccagaatgttattttt--gttaaaacagggataaataCACTGGATTTACATGCatatataagtatatattttataaatatttaaataaGCATACTTAAAATGGCAAAAACATAATACATATATAATTTTCTTATGGCAggaggaggaaacagggcaaggc
acagggataaaagttattctgaatacatcttattttatatttttgactttgaaatcatgtagctgttttacataatttaaaaatgtaattaaagtaacagaaaaaaattacaactgccaaaaATCAAGATCTGGCATTTTAATTAAGTTATAAAACATCGGAGAAAAGAATTGTTTCATGGGACACTAACATACAGTCAAATTCATTTGGAACCCAATGAATTAATGGGCCTAAGATAACAACCAGCAGAAGCTAAAATGACGAGTAACTGTTTCAGAAGAAAACATATATGGAATGAATCAGCTGAAAATACCTGAACCTACTGATCAATTTTTATATCACATGAAGTGAATACACATAAAGTATAATATGGAGCACATAGAACCAACTAGAAATGAGCCTAATTGGTAAAGATTCTCTATTTTATGAcaatatacaggaaatatgtcgaagagagaaacatgcaagaacaccgtaggatttaataagataatcacaaggtatggaatattcaacaggatgaatatcctggattattcagcaaatacacagagcgaaaaagcaggagaaaggaattcatatatatttttaaaaactaaaaagatatattagccaatgcaactttgaaacttctttagatcctgattcaaatagagcaaatttaacaaatatatttgaaactattaaaataattttaaaatgactaagtatttgattatatcaaatatagacaataataaccttgaatgtacatggattaaatgtccacttaGGggctgggtgtggtggctcatgactataattccagcactttgggaggccaaggcagaaggattgcttgaggtcagaggttcaagtgcagcctggtcaacacagtgagaccctatctctacaaaaaacaaacaaaaataaaaaaTTAAACtaatttttaaaaaaatatatttCTTCtaaattctccacctgaaagatatagactgactgaatgaatt
ttaactatgacctgactatgtgcttccctgaacaaatgcactttacctgtaaaaacacatattaactaaaagaaaagagatggaaaaaggtattccatgaacagaaaccaaaatgagtagaagtagctatacttatgtcagacaaaacagactttaagtcaaaactagctttagaaaaaagacaaaaatgcttattatacaatgataaaggaatcaatccagaaagaggatataacaattttaaatatatatgcagccaacactggtgcagccagattcataaagcaaatactactagatcaaaacagagaggtagactcaaatataataatagtgaaggacttcaacaccccactttcagcattaaacagatcatctaataagaaaaccaatctcgcagccctcaccctggagagtccacagggaccaggggttggtctgaacccccagcacagagcacctgcctcacggaagagtggctgcatttttcttcatgcagttttccgtcctcacttctccttaccaagcagggccgcctggcctgggactcctgtacaactaccctgcccctcacctgaccacttcaataagaagtagcccagcatttctccaaggaggaaataccagagtcaattcacaaccactgcaattgcagtggtaccaccataacagcccttgggctgcagaaggaactaagagtctagtcactacagtggcaccttcagcacaccacagccaccatacagagaggagtccacccccctcccctgggaacccccaccacccactccaccaggcacagcccccagctcataactacagatcagttgccccacccacagctgagcttacctactggcagtggcccagactttccccagggagaggctcccagaggcaaacggcagcctctctgcccctgtcacagcagcagttctatccatgctgtcctcaggcttggaaagaaacaaagcgcctgaaggctgcat
ctgaacttacagcatgccacagttcccatatggagaggagaccagtctctcctcccagtgagccctaaaccccctgatccccaacaagcagagccctaacctcacaccagcagtacagctgccccatcccccaggctgaacattcccagtaatagcagctccacctggagatggagcccccagggtcaaccaaaagcccctctgccactgcctctacggtggtactactcctgctacccttgaactaacaaaggagcaaagaccccagtgctctatccacacctccaacaagcttcagtcgaccacaaagaaaaaaccagtctgtctcccatgggtcctacccacaccccctgctgttcaccatggatgatagagtcaacagtgtgaaaacaaccatactgccaaaagcaacctacaaattcaatgcaattccaatcaaaataccaccatcattcttcacagaactagaaaaaacaatgctaaaattcacatggaaacataaaagagcccacatagccaaagcaagacttagcaaaaagaacaaatctagaggcatcacattacttgacttcaaactatactataaggccatagtcaccaaaacagcatggtactggtataaaaataggcatatagaccaatggaatagaatagagaacccagaaataaagccaaatacttacagccaacttatctttgacaaagc-agcaaaaacataaagtggggaaaggacaccctattcaac-aatggtgctggtataattggcaagccacatgtagaagaatgcaactggatcctcatctctcaccttataaaaaaatcaactcaagatggttcacagacttaaatctaagacctgaaaccataaaaattcttgaagataacattggaaaaacccttctagacattggcttaggcaaagacttcacaatcaagaacccaaaagcaaacacaacaaaacaaagataaatagatggcacttaatta
aactgaaaagcttctgcacagcaaaataaataatcagcagagtaaacagacaacccacagagtgggaggaaatcttcacaaaccatgcatccaacagaggactaatatccagaatctacaaagaattggaacaaatcatcaagaaaataaac
+
+a score=285297
+s hg18.chr1 70493 3253 + 247249719 aacaCAAGGATGACAGTGGAAATACAAAAACAAGACATAAATATTCTGAATAGTGATAATAAAACAGTGCATACCAGAATAcaaactgtttccaagttacaatggttcaaccatttttcagctttatggtggtgtgaaagtgatatccattcattagaaaccatgctccaggatgggcgcagtgggtcacgcctgtaatcctagcactttgggaggccgaggagggcggatcacaaggtcaagagatcaagaccatcctggccaacatggtgaaaccccgtctctcctaaaaatacaaaaattagctgggcattgtggtgcgtgcctgtaatcccagctattcgggaggctgaggcaggagaatcacttgaaccagggagtcggaggtgttgcagtgagccgagatcgtgccactgcctccagcctggcaacagagtgagactccatctcaaaaaaaagaaagaaaccctactccgaattttgaattttgatattttcctggactaccaatatgtggcacaatgctctctcacaatgttgtgcaacagcggtgagctgcagcttccagtcagctaaatgataataaaggtagataatccatcttgatatcttcctgaagaacataatgcctgcctaccatcaacaggcatcaatactttctaccagctattctcaaccctcatgatcggaagagacagagactgactgtgtcaaagtattagtcccatcattcagcaattaactttagctcaatgcttcaaaaattcttcaggccctgtgtaatttcagctacgtacattaatgatgagtacccatacaaccattctgtttcttattttcagtaccatatttaataaatatcagttattcaatactttatttagacattttgttagattattttgaccaactgaagtctaatctaaatgttctgagcatgttcaaagt
aagctaggccaacctataattttcggtgtgctaaatgcatttttaacttatgatattttcagtttacgggggtttgttgagacataacttcatcatacatcaaggagcatctgTAtatgggatatagttaaagcagtgatcagaggaaaatctatagccttaacacatttattaataaaagtgtaggaattaaattatcagctgaaaaatgtaaaaagtatctaaaagagtaagcagaaagtacaagaaagaacccaaagtagaaaaaagtgaaaattaataaaataagaagccaaaaaacagatcaaatcagtaaaccaaaaatcttgttctttaaacaaatcaacaaagttgacaaaaaaattagatcttttaatcatgaataaaaaaaagagaaagcacaaaaatgaataaggaatggtgagagaaataactattgataatcagcaaataaaaaatcattaaaaacaatgttgttcacatctatgaaaaacattgaaagctagagggaatgggtaattttctagaaaaatacaattcaccacaactgacttcaaaaaaaaaaaaaaaaAAAAAGAAGTACCGCACTTATGTGAGCAATTTCCATAGAGAAATACAGTTGTCATGGAATTATAACACACACACAAACACTAGGTTTAGATGTTTTCACAGAGAATTCCACCAAACCTTTAGAAATCAGATCGTCCAaaggcaaattaacaactctcagccatttgaggcaaaatattacaattgaggcaagatatactgtactgaaaacttgaggaaaaagcaggagagaaagttcctttgggaaattcgaatactcaaaagtgcttacatacaatgaaaaatttggaaatccataagcatggccaaggtgggacacatgctcagaaaaggcctgagaagacactaataactcacctttagtaattcctaggctcacagc---aagaaaaaatgaaggctaaggcagaattatatat
ggctccgctaagtgttgagggagccccaatacagagtcagtaagcaaagtctgggagaagtttttcata-tttttttctttcttggctccttgcagtcaaggaaatcatttttaaatcactaaatgctaaatgaacacaagctaaaggaaccgagccttcaaacatcaaatataaaaaagaatgcagatattacaaaaccagtttacaaaagttactaaacaaataaaaactacatcccacagtgggtaacaaaaataaccttgaagaagggaaaaatttggtttccagaataaacacattataatatccaaaatgtccagttttcaacaaaaattaagaagcatgcaaataaacacaaaactatggcccatttacagaagaaataaatgagactctccctgagtaag--cagatattgaaaatattagacaaaaactttatataactgtcttaaataaacttaaagagctaaagaaacccaagagaatgacatataaataaataagaaatatgaatttttttaaaggtacaaaaaaattctgaggctgaaaagtacaa----taagtaaaaagttactttttacttagggttccaatagaagatttgagcagctggaaaaaagaatcagtgaacttgatagatcaaatgaaatgattcagtctgaagagcaggaaaatgaaagaatgacaacaaaaaagaatagagcctaaagacctgtgtaacaacatcaagaatgcctacatacagaatcctggtggggagtgaggggcaggaagactatttgaagaaatgtgtttgaaagcttcccaaatttcactaaaaacaaatatatacattcaaaaagctcagtgaacttcatcaaggaaatatacaaagatattcacaccaagacacactatgtttcaaattgtcaaaaggcaaagcgaatgtttgaaagcagcaagagaaaggcaacgcgtcatttacaaaggatcctcaataagtttg
acagcagatagtgcattataagccatggatgccagaagagcttaggaaaaaggcaacgcgtcatttacaaaggatcctcagtaagtttgacagcagagagctcattataaaccatgggtgccagaagagcttaggatgacattttaaagttctgaaagaaaaaaacactgtcaaccaaaaattctataacttggaagatgccccttcaagtattaaggataaattacacattcccagattaaaaaaaagaaagagagagagagagaaagagaaagaaagaaag--agaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaagagaaagaaa
+s panTro2.chrUn 9741371 3254 + 58616431 AACACAAGGATGACAGTGGAAATATAAAAACAAGACATAAATATTCCGAATAGTGATAATAAAACAGTGCATACCAGAATAcaaactgtttccaagttacaatggttcaaccatttttcaactttatggtggtgtgaaagtgatagccattcattagaaaccatgctccaggatgggcacagtgggtcacgcctgtaatcctagcactttgggaggccgaggaaggcagatcatgaggtcgagagatcaagaccatcctggccaacatggtgaaaccccgtctctcctaaaaatataaaaattagctgggcattgtggtgcgtgcctgtaatcccagctatttgggaggctgaggcaggagaatcacttgaaccagggagttggaggtattgcagtgagccaagatagcaccactgcctctagcctggcaacagggtgagactccatctcaaaaaaaaggaagaaaccctactccgaattttgaattttgatattttcctggactaccaatatgtggcacaatgctctctcacaatcttgtgcaacagcggtgagctgcagcttccagtcagccaaatgataataaaggtagataatccatctttatatcttcctgaagaacataatgcctgcctaccatcaacaggcatcaatactttctaccagctattctcaaccctcatcatcggaagagacagacactgactgtgtcaaagcattagtcccatcattcagcaattaactttagctcaatgcttcaaaaattcttcaggccctgtgtaatttcagctacatacattaatgatgagtacccatacaaccattctatttcttattttcagtaacatatttaataaatatcagttattcaatactttatttagacattttgttagattattttgaccaactgaagtctaatctaaatgttctgagcatgttcaaagt
aagctaggccaacctataattttcggtgtgctaaatgcatttttaacttatgatattttcagtttacgggggtttgttgagacataacttcatcatacatcaaggagcatctgTAtatgggatatagttaaagcagtgatcagaggaaaatctatagccttaacacatttattaataaaagtgtaggaattaaattatcagctgaaaaatgtaaaaagtatctaaaagagtaagcagaaagtacaagaaagaacccaaagtagaaaaaagtgaaaattaataaaataagaagcc-aaaaacagatcaaatcagtaaaccaaaaatcttgttctttaaacaaatcaacaaagttgac-aaaaaattagatcttttaatcatgaataaaaaaaagagaaagcacaaaaatgaatacggaatggtgagagaaataactattgataatcaacaaataaaaaatcattaaaaacaatgttgttcacaactatgaaaaacattgaaagctagagggaatgggtaattttccagaaaaatacaattcaccaaaattgacttc-------aaaaaaaaaaaaaagaagtacagcacttatgtgagcaatttccatagagaaatacagttgtcatggaattataacacacacacaaacactaggtttagatgttttcacagagaattccaccaaacctttaGAAATCAGATcatccaaaggcaaattaacaaccctcagccatttgaggcaaaatattacaattgaggcaagatatactgtactgaaagcttgaggaaaaagcatgagagaaagttcctttgggaaattcgaatattcaaaagtgtttacatgtaatgaaaaatttggaaatccatgagcatggccaaggtgggacacatgctcagaaaaggcctgagaaaacactaataattcacctttagtaattcctaggctcacggcaaaaaaaaaaaacgagggccaaggcagaattatatat
ggcttggctaagtgttgagggagccccaatacagagtcagtaagcatagtctgggagaggtttttcatattttttttcttttttggctccttgcagtcaaggaaatcatttttaaatcactaaatgctaaatgaacacaagctaaaggaactgagccttcaaacagcaaacataaaaaagaatgcagatattaaaaaaccagtttacaaaagttactaagcaaataaaaactacatcccacagtgggtaacaaaaataaccttgaag-agggggaaatttggtttccagaataaacacattatactatccaaaatgtccagttttcaataaaaattaagaagcatgcaaataaacacaaaagtatggctcatttacagaagaaataaatgagactctccctgagtaagcacagatattggaaatattagacaaaaactttatataactgtcttaaataaacttaaagagctaaagaaacccaagagaatgacatatgaataaataggaaatgtgaattttttaaaaagtacaaaaaaattctgaggctgaaaagtacaataactaagtaaaaagtaactttttacttggggttccaatggaagatttgagcaggtggaaaaaagaatcagtgaacttgatagatcaaatgaaatgattcattctgaagagcaggaaaacgaaagaatgacaacaaaaaagaatagagcctaaagacctgtgtaacaacatcaagaatgcctacatgcagaatcctggtggggagtgaggggcaggaagactatttgaagaaatgtgtttgaaagctccccaaatttcactaaagacaaatatacacattcaaaaagctcagtgaacttcatcaaggaaatatacaaagatattcacaccaagacacactatgtttcaaactgtcaaaaggcaaagtaaatgtttgaaagcagcaagagaaaggcaatgcatcatttacaaaggatcctcaataaatttg
acagcagatagcacattataagccatggatgccagaagAGCTTaggagaaaggcaacacatcatttacaaaggatcctcagtaagtttgacagcagagagctcattataaaccatggatgccagaagagcttaggatgacattttaaagttctgaaagaaaaaaacactgtcaaccaaaaattctataacctggaatatgccccttcaagtattaaggataaattacacattcccagattaaaaaaaAAaaaga-agagagggagagagagaaataaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaaagaaagaaa
+
+a score=24006
+s hg18.chr1 73836 305 + 247249719 aaaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaaag-aaagaaagaaagaaagaaagaa--aagcaagcaagctttaaaagttcatgtttggtaggctgtacttcaagatacacttttaaaaaaaagactccttcagatacaaactaaaaaacactagaaagtaactcaaaaccacataaagaaataactccagtaaagataactacataggtaaatataaaagcaattatcacattttttgtaagtcttttttaatattctatat--gttttaaaacaaatgtgtaaaataatgactata
+s panTro2.chr15 87759 308 - 100063422 aaaagaaagaaagaaagaaagaaaagaa--aagaaaaaaggaaaggaaaggaagaaaaagaaaagcaagcaagcaagcaagctttaaaagttcatgtttggtaggatgtacttcaagatacactttaaaaaaaaagactcctgcagatacaaactacaaaacactagaaagtaactcaaaaccacataaagaaataactccagtaaaggtaactacataggtaaatataaaagcaattatcacattttttgtaagtcttttttaatattctatataagttttaaaacaaatgcgtaaaataatgactata
+
+a score=250753
+s hg18.chr1 74141 2820 + 247249719 aatctatgttaatgaagcatgatgtatacagatgtggtttgtgaaattaccaacataaagaaattcataggaaactaaataataatagagattttgtata-ctattgaagtt--gtttcaatttactctaaattgttccaaattaagaatgttaattgtaaatccccatggtaacc-actaagttaatatcttttgaaaatacagaaaaggaaagcacagggtaaacacagtgatatgctacaaaatagcaactaaacacaaaagaaggcgataattgaggaaattaggaacaaaggaggtataagacatacagaaaacaaaagcaaaatggtaggagtaagcccctctttatcagtaattacattaaatacaaatgaattaaactctccaatccaaagaaagagattaacagaatggattttttaaaaatgatccaactatattgtccacaagatactcactttagatcaaaatacacaatgagttgaaatgaaaggatgggagaaaatattccatgtaagtaataaccaaaggagatctgaggcaaatatacttatatcagacaaaatagactttaagtcaaaaactgttacaaaatacaaagaacagtatatattgatttcaaaattaattaagaagatataacaattataaatatatgtacaccaactaacagggctccaaaatatataatgtaaccattgagagaattaaagggagagacagacaattccacgaaaattgttgggcatttgaaaacccaactttaaataaaagataaaacatctagagcaaatatcaagggaggaattagaggatttgaataaaactataagcaataactatagataacacttctctcaaaaactgcagagtacacattcttctcaagtgaacatggaacattctccagcacagatgatatgttaggccataagataagctca
ataaacttaaaaagattgaaatcatgcaaagtatcttcactggccacaatggaatgaaataagatatcaataacaaaagaaaaactagaaaatttacaaatatttggaaattaaacaacacagtatttaccaaccaatgaatcaaagaacaaatcatgagggaaattagaaaatgtttagagacgattgaaaacaaatatataacaagatgggtgtgatatatcaaaagcagtgctcagagttgtaacacctacattttaaaaaagaaacatgtcaaatcaataaccaaactttactcaataaaccgtaaaaggaagagcaaacaaaatccagagctagcagaaggaaggaaatgaagattagagcagagataaatgaaattgagaattaaaaaattatacagagatcaacaaaattaaaagttggttcttttaaaatatcaataaaattaatatacttttacatagactaagcaaaacatctctattcagctgactttttttacaagggagccaacattattcagtggggaataatagctttttcaacaaaaagtgctgggaatactgaatattcatatgcaaaaaaaatgaagctggacccctacctcacattatatacaaaatctagattggatcaataatgtaaatataagagtgaaaaccatacatgcttagaagaaaacatggaaataaaacattgctgtggattggcaatgcgttcttagataatacaccaaaaatacaagcatgaaacaaacaaatGCAGCCAAAATGTACCAGAATCTGAAAACATCTATTATCTATGAAGAATTAGAGGGGAATTTGGTGAAAGAAATatgggagaatgggacattgctctgtgaatgcttttgtgcataattgtacatttttaattaagttaatcttttacactctcaaagtgtgatattaagcaagcaaagataagttattacaagactctaaaaccgaatgcaatgagaaacaagt
gaatccaaatatatttcaaatgaatgaatgacataatcaaacttaaggggaaaataataattaatctgattaatttttgactgttcttttagttcaaattgacttttgaacatacttggactacataccattgcttgaaaaaataaaatatctgcaaaaaattattaaatcttcatgataggcttttttctttttatattagtataaatataacaattctgaaacaaatgtatgtgcattgtaagattaagccaatgagtaaatattaatatatttgtattgctagaaccccagattctcactgtgaaaggacagagatacagatatggaataagacaaggaaagaagcagcccactgagttacattagaatcagtattatcaacataaaTATGCAATGTGCTCTCTCACATGCTCTTTCCTTCTCTTAAAAAAATATA--ATATGGACATATTATATATTATATGCATAGACACACGTGTGTCTATACATATCCTATCTATACATATTGAGGATTAACAGGTGCTAGTAGAAAATATTAACTTTCTTTGTATTAACAGGTGTTAGTAGAAAGTAGTAGTAGGTGCTAAGATAAAAGCCATAATTAAAcctcctggtgaatgaacacaccatcacctacaatcttaccaaaaatagaatcaagcacgtgtcctagtcaaacctctggattcaactgtcatttggataaaacgcaaaggatagtgaaaatgtcgatcttcactgagagtctaaccagcaaatttcacagtgtggacatcaagtgacaaaaatcccaaatttttcaacaaatatattgtatgggaaagaaaactttgaaaagaaacctgtatgttagaagagattttaaaaacatgacaaATGAAAAAAAA
+s panTro2.chrUn 9745125 2821 + 58616431 AATCTTTGTTAATggagcatgatgtatcaagatgtggtttgtgaatttagctacatcaagaaattcgttggcagctaggtaataatnccgattttgtataactattgaaggttggtttcaatttatgctaaattgttccaaattaagaatgttaattgtaaatccccagggtaacccactaagttaatatcttttgaaaatacagaaaaggaacgcagagggtaaacacagtgatatgctacaaaatagcaactaaacacaaaagaaggcgataattgaggaaattaggaacaaaggaggtataagacatacagaaaacaaaagcaaaatggtaggagtaagcccctctttatcagtaatgacattaaatacaaatgaattaaactctccaatccaaagaaagagattgacagaatggatttttaaaaaatgatccaactatattgtccacaagatactcactttagatcaaaatacacaatgagttgaaatgaaaggatgggagaaaatattccatgtaagtaataaccaaaggagatctgaggcaaatatacttatatcagacaaaacagactctaagtcaaaaactgttacaaaatacaaagaacagtatatattgatttcaaaattaattaagaagatataacaattataaatatatgtacaccaactaacagggctccaaaatatataatgtaaccattgagagaattaaagggagagacagacaattccacgaaaattgttgggcatttaaaaatccaactttaaataaaggataaagcatctagagcaaatatcaagggaggaattagaggatttgaataaaactataagcaataactataggtaacacttctctcaaaaactgcagaatacacattcttctcaagtaaacatggaacattctccagcatagatgatatgttaggccataagataagctca
ataaacttaaaaagattgaaatcatgcaaagtatcttcactgaccacaatggaatgaaataagatatcaatatcaaaagaaaaactagaaaatttataaatatttggaaattaaacaacacagtatttaccaaccaatgaatcaaagaacaaaccatgaggcaaattagaaaatgtttagagacgattgaaaacaaagatataacaagatgggtgtgatatatcaaaagcagtgctcagagttgtaacacctacattttaaaaaagaaacatgtcaaatcaataaccaaactttactcaataaaccataaaaggaagagcaaacaaaatccagagctagcagaaggaaggaaataaagattagagcagagataaatgaaattgagaattaaaaaattatacagagatcaacaaaactaaaagttggttcttttaaaatatcaataaaattaatatacttttacatagactaagcaaaacatctctattcagctgactttttttacaagggagccaacattattcagtggggaataatagctttttcaacaaaaagtgctgggaatactgaatattcatatgcaaaaaaaatgaagctggacccctacctcacattatatacaaaatctagattggatcaataatgtaaatataagagtgaaaaccatacatgcttagaagaaaacatggaaataaaacattgctgcagattggcaatgcgttcttagataatacaccaaaaatacaagcatgaaacaaacaaatGTAGCCAAAATGTACCAGAATCTGAAAACATGTATTATCTATGaagaattagagaggaatttggtgaaagaaatatgggagaatgggacattgctctgtgaatgcttttgtgcataattgtacatttttaattaagttaatcttttacactctcaaagtgtgatattaagcaagcaaagataagttattacaagactctaaaaccgaatgcaatgagaaacaagt
gaatccaaatatatttcaaatgaatgaatgacataatcaaacttaaggggaaaataataattaatctgattaatttttgactgttctcttatttcaaattgacttttgaacatactttgactacataccattgcttgaaaaaataaaatatctgcaaaaaactattaaatcttcatgataggcttttttctttttatattagtataaatataacaactctgaaacaaatgtatatgcattgtaagattaagccaatgagtaaatattaatatatttgtattgctagaaccccagattctcactgtgaaaggacagagatacagatatggaataagacaaggaaagaagcagcccactgagttacattagaatcagtattatccacataaaTATGCAATGTGCTCTCTCACATGCTCTTTCCTTCTCTTAAAAAAATATATAATATGTGCATAT-----ATTATATGCATAGACACACGTGTGTCTATACATATCCTATCTATACATATTGAGGATTAACAGGTGCTAGTAGAAAATATTAACTTTCTTTGTATTAACAGGTGTTAGTAGAAAGTAGTAGTAGGTGCTAAGATAAAAGCCATAATTAAAcctcctggtgaatgtacacaccatcacctacaatcctaccaaaaatagaatcaagcacgtgtcctactcaaacctctggattcaactgtcatttggataaaacgcaaaggatagtgaaaatgtcgatcttcactgagagtctaaccagcaaaattcacagtgtggacatcaagtgacaaaaatcccaaatttttcaacaaatatattgtatgggaaagaaaactttgaaaagaaacctgtatgttaaaagagattttaaaaatatgacaaATGAAAAAAAA
+
+a score=163295
+s hg18.chr1 76976 1815 + 247249719 CTTTTAAAAAAGtttgagacagggtctcactctgtcacccaggctggagtgcagtggtgtgaccatggctcactgtggcctcaacctcctggctcaagtgatcctaccacctcagtcttccatgtagctgggactacagctgcgtgccaccacatctggctcatttttttttcttttttaagtagagacggggacttgctatgttgcccaggctagtctcaaactcctaagcacaagcgatcctcccgcctcggcccctgaaagtgctgggattgcaggcatgagccaccacacccggccAAAAGTTGCTTTTGAGGAGTTATTGCTGTGTGGATGTGATATAACCCTTTCTGTCATCTCTTCACAAAACTTTCTGTAAAACATAAAAATCACCTGGACCTTCAGAGATGAGTTTGtttatttttttattttttaaaaaattGCTAATTTACAGAACATGGAGATGAGTATGTTTTGAAGGCTTGGAAGCATGCAAGTGGGAGAAGAAAGGAGTCAGCTACATTCTGGCTGTGTGCAGAGGCAGGTCACTGTGGTGGGAGTGTTCCTGTTTCATGGACTCTGCAAATCGCAATGCTTGGCATGGCCTCCCGACCCTGATGGCAGAGAAGCAAACACCAGTCGGAGAGCTGGGGTCCTCCCAGCCCTCTTGGCCCTGTGGCCAATTTTTTCTTCAATAGCCTCATAAAATCACATTATTTGAGTGCCCATGGCTCCAAAACAAGCAGGGATGCCCATGGACCCTGATTATCCATTGTCACCCTTCCCTCCAAACAGCCACCTCTCCCCTGGAGACAGCCCCATACTCCACTCAGACCTGTGCACTTTCTGGTATCCTTGTCACCTGCTTTTTATGTCTCATTTTACAAACACCAAATTGGAAGACAGCAGGAGCTGCCCCATAATACCAGTAAAGTGAGAAGCAGAGA
TAAACTAGTCCTAGACAGCCGACTCATGTTGGGGGCAGCCCACTCACAGTGGCCCTGACCCAACTCTGACTAGAGGCCACTTGctctcaacaccagggtgctcaatggcccgtcctggtactctgctcttctctctccaccttcgctttcctgcaatctatgcagcctgtgactccatccatgggctagtgacccccagaccttctcctgggaccacaggcctgtgtctctatctgctgctcaatacctcccctcgaacatccatggctaaaactgagctcctgatactctctccctacccgcttctctgtggattccccacctccgcgaaggacagcttcatcctttcagctactcaggccagaagattgaagtcatctccttctccaggaaatcgtattgagggagctacaaatatccaaaatccgatcgcttctcctccactacacccgaggcccgccacccatttttgcctgaattgctgcagcagcctcctaaccgatctctgctttcacgtgggcacctcagttttttccagaacaacaaccagagagatctgctcacacccaagtcagaccaggttactcctctgctctcatagcatttggaggaaa-----------------------------------------------------------------------------------------------acccagagtgctcgtgttggccggcagagccggcccccatctcctctgacctcctccccacctcttgccctcagcacccagagtgctcgtgacggccagcagagccagcctccatctcctctgacctcccacctctcgccctcagcaccCAGAGTGCTCGTGTTGGCCAGCAAAGCCGGCCCCCATCTCCTCTGACCTCCCACCTCTCGCCCTCTGCACCCAGAGTGCTCGTGACGGCCAGCAGAGCCGGcccc
+s panTro2.chrUn 56815378 1906 - 58616431 cTTTTAAAAAAGtttgagacagggtctcactctgtcacccaggctggagtgcagtggtgtgatcatggctcactgtagcctcaacctcctggctcaagtgatcctaccacttcagtcttccatgtagctgggactacagctgcgtgccaccacatctggctcttttttttttcttttttaagtagagatggggacgtgctatgttgcccaggctagtctcaaactcctaagcacaagcgatcctcccgcctcggcccctgaaagtgctgggattgcaggcatgagccaccacacccggccAAAAGTTGCTTTTGAGGAGTTATTGCTGTGTGGATCTGATATAACCCTTTCTGTCATCTCTTCACAAAACTTTCTGTAAAACATAAAAATCACCTGGACCTTCAGAGATGAGTTTGtttatttttttattttttaaaaaattGCTAATTCACAGAACATGGAGATGAGTATGTTTTGAAGGCTTGGAAGCATGCAAGTGAGAGAAGAAAGGAGTCAGCTACATTCCGGCTGTGTGCAGAGGCAGGTCACCGTGGTGGGAGTGTTCCTGTCTCATGGACTCTGCAAATCGCAATGCTTGGCATGGCCTCCCGACCCTGATGGCAGAGAAGCAAACACCAGTCGGAGAGCTGGGGTCTTCCCAGCCCTCTTGGCCCTGTGGCCAATTTTTTCTTCAATAGCCTCATAAAATCACATTATTTGAGTGCCCATGGCTCCAAAACAAGCAGGGATGCCCATGGACCCTGATTATCCATTGTCACCCTTCCCTCCAAACAGCCACCTCTCCCCTGGAGACAGCCCCATACTCCACTCAGACCTGTGTACTTCCTGGTATCCTTGTCACCTGCTTTTTATGCCTCATTTTACAAACACCAAATTGGAAGACAGCAGGAGCTGCCCCATAATACCAGTAAAGTGAGAAGCAGAGA
TAAATTAGTCCTAGACAACCGACTCATGTTGGGGGCAGCCCACTCACAGTGGCCCTGACCCAACTCTGACTAGAGGCCACTTGctctcaacaccagggtgctcaatggcccgtcctggtactctactcttctctctccaccttcgctttcctgcaatctatgcagcctgtgactccatccatgggctagagacccccagaccttttcctgggaccacaggcctgtgtctctatctgctgctcaacacctccccttgaacatccatggctaaaactgagctcctgacactctctccatacccgtttctctgtggattccccacctccacgaaggacagcttcatcctttcagctactcaggccagaagattgaagtcatctccttctccaggaaatcgtattgggggagctacaaatatccaaaatccgatcgcttctcctccactacacccgaggcccgccacccatttttgcctgaattgctgcagcagcctcctaaccaatctctgctttcacgtgggcacctcagttttttccagaacaacaaccagagagatctactcacacccaagtcagaccaggttactcctctgctctcatagcatttggaggaaaacccagagtgctcttgccctcagcacccagagtgctcgtgacggccagcaaagccggcccccatctcctctgacctcccacctctcgccctctgcacccagagtgctcgtgacggccagcagagccggcccccgtctcctctgacctcc----cacctctcgccctctgcacCCAGAGTGCTCGTGACGGCCAGCAAAGCCGGCCCCCGTCTCCTCTGACCTCCCACCTCTCGCCCTCAGCACCCAGAGTGCTCGTGACGGCCAGCAAAGCCGGCCCCCATCTCCTCTGACCTCCCACCTCTCGCCCTCTGCACCCAGAGTGCTCGTGACGGCCAGCAAAGCTGGcccc
+
+a score=108492
+s hg18.chr1 78793 1178 + 247249719 tctcctctgacctcccacctctctccctcagctagtcctcgaacatgtctgatgtggtcccaccttgggacccacattgctactcctctgcctgtaggggtacccacagttatccacacagttcactcctgtctttcaggtctttgtgcaaatatcaccttctcagtggagacTACaccttcaggacttaggctgtgcctggcacatagtaggtgctcagtagacactggttgtaggaaggaatCTACAGGTTGAAATAAGGAGATCATTTCCCTGAGGTTCCGAAGCTCATATTTACTCACCATTTGTTGTTTACTGCTAATATTGAGCACTATCAGTAAAATACATAAAACCCtttgccaatccaggaagtgaaaatgacactttactgttttagtttgcatttctctgcttacaaatggattacacgcattttcatgtgctgttggctacttATTCATTCAGAAAACATACTAAGTGCTGGCTCTTTTTCATGTCCTTTATCAAGTTTGGATCATGTCATTTGCTGTTTTCTTTCTGATGTAAACTCTCAAAGTTTGAAGGGTATTGTCTTTTCCTGACACATACGTTGTAAATAATTTTCTGGCTTACATTTTGACTTTTAATTTCATTCACGATGTTTTTAATGAATAATTTTAATTTTTATGAATGCAAGTTAAAATAATTCTTTCATTGTGGTTTCTGACATGTCATGCCAATAAGGGTCTTCTCCTCCAAGAGCACAGAAATATTTGCCAATACTGTCCTTAAAATCGGTCACAGTTTCATTTTTTATATATGCATTTTACTTCAATTGGGGCTTCATTTTACTG---GCCCTATTTGAAGCAAGTTTCTCAGTTAATTCTTTTCTCAAAGTGCTAAGTATGGTAGATTGCAAACATAAGTGGCCACATAATACTCCCACCTCctttgcctcctctccc
aggaggagatagcctccatctttccactccttaatctgggcttggccaagtgacttacactggccaatgggatattaacaagtctgatgtgcacagaggctgtagaatgtgcactggggcttggtctctcttgctgccctggagaccagctgccCCACGAAGGAAACAGAGCCAACCTGCTGCTTCCTGGGGGGAGACAGTCCCTCAGTCCCTCTGTCTCTGCCAATCAGTTAA
+s panTro2.chrUn 56817286 1178 - 58616431 tctcctctgacctcccacctctctccctcagctagccctccaacatgtctgatgtggtcccaccttgggacccacattgctactcctctgcctgtaggggtacccacagttatccacacagttcactcctgtctttcaggtctttgtgcaaatatcaccttctcagtggagacTACaccttcaggacttaggctgtgcctggcacatagtaggtgctcagtagacactggttgtaggaaggaatCTACAGGTTGAAATAAGGAGATCATTTCCCTGAGGTTCCGAAGCTCATATTTACTCACCATTTGTTGTTTACTGCTAATATTGAGCACTATCAGTAAAATACATAAAACCCtttgccaatccaggaagtgaaaatgacactttactgttttagtttgcatttctctgcttacaaatggattacacacattttcatgtgctgttggctacttATTCATTCAGAAAACATACTAAGTGCTGGCTCTTTTTCATGTCCTTTATCAAGTTTGGATCATGTCATTTGCTGTTTTCTTTCTGATGTAAACTCTCAAAGTTTGAAGGGTATTGTCTTTTCCTGACACATACGTTGTA---AATTTTCTGGCTTACATTTTGACTTTTAATTTCATTCACGATGTTTTTAATGAATAATTTTAATTTTTATGAATGCAAGTTAAAATAATTCTTTCATTGTGGTTTCTGACATGTCATGCAAATAAGGGTCTTCTCCTCCAAGAGCACAGAAATATTTGCCAATACTGTCCTTAAAATCGGTCACAGTTTCATTTTTTATATATGCATTTTACTTCAATTGGGGCTTCATTTTACTGAATGCCCTATTTGAAGCAAGTTTCTCAGTTAATTCTTTTCTCAAAGTGCTAAGTATGGTAGATTGCAAACATAAGTGGCCACATAATACTCCCACCTCctttacctcctctccc
aggaggagatagtctccatctttccactccttaatctgggcttggccatgtgacttacactggccaatgggatattaacaagtctgatgtgcacagaggctgtagaatgtgcactggggcttggtgtctcttgctgccctggagaccagctgccCCACGAAGGAAACAGAGCCAACCTGCTGCTTCCTGGAGGAGGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAA
+
+a score=133824
+s hg18.chr1 79971 1468 + 247249719 CCTGCTGCTTCCTGGAGGAAGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCATGGAGGAAGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCCCTCTGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCCCTCTGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCACTCTGTCTCTGCcaacccagttgaccgcagacatgcaggtctgctcaggtaagaccagcacagtccctgccctgtgagccaaaccaaatggtccagccacagaatcgtgagcaaataagtgatgcttaagtcactaagatttgggCAAAAGCTGAGCATTTATCCCAATCCCAATACTGTTTGTCCTTCTGTTTATCTGTCTGTCCTTCTCTGCTCATTTAAAATGCCCCCACTGCATCTAGTACATTTTTATAGGATCAGGGATCTGCTCTTGGATTTATGTCATGTTCCCACCTCGAGGCAGCTTTGTAAGCTTCTGAGCACTTCCCAATTCCGGGTGACTTCAGGCGCTGGGAGGCCTGTGCATCAGCTGCTGCTGTCTGTAGCTGAGTTCCTTCACCCCTCTGCTGTCCTCAGCTCCTTCGCCCCTGGGCCTCAGGAAATCAATGTCATGCTGACATCACTCTAGATCTAAAACTTGGGTTCTTGgaccaggtgcggtggctcacatctgtaatcccagcaatttgggaggccgaggcgggtggatcacaaggtcaggagatcaagacgatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaatt
agccgggtttggtggcaggtgcctgtagccccagctacttgggaggctgaagcaggagaatggcgtgaacctgggaggtggagctggcagtgagccaagatcacgccactgcactccagactgggagagagagcgagactttctcaaaaaa----aaaaaaaTCTTAGGTTCTTGGATGTTCGGGAAAGGGGGTTA-TTATCTAGAATCCTTGAAGCGCCCCCAAGGGCATCTTCTCAAAGTTGGATGTGTGCATTTTCCTGAGAGGAAAGCTTTCCCACATTATACAGCTTCTGAAAGGGTTGCTTGACCCACAGATGTGAAGCTGAGGCTGAAGGAGACTGATGTGGTTTCTCCTCAGTTTCTCTGTGTGGCACCAGGTGGCAGCAGAGGTCAGCAAGGCAAACCCGAGCCCAGGGATGCGGGGTGGGGGCAGGTACATCCTCTCTTGAGCTACAGCAGATTAACTCTGTTCTGTTTCATTGTGGTTGTTTAGTTTGCGTTTTTTTTTCTCCAACTTTGTGCTT
+s panTro2.chrUn 56818581 1471 - 58616431 CCTGCTGCTTCCTGGAGGAAGACAGTCCCTCTGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAGGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCCCTCAGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGG-GGAGGACAGTCCCTCTGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAGGACAGTCCCTCTGTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCACTCTGTCTCTGCcaacccagttgaccgcagacatgcaggtctgctcaggtaagaccagcacagtccctgccctgtgagccaaaccaaatggtccagccacagaatcgtgagcaaataagtgatgcttaagtcactaagatttgggCAAAAGCTGAGCATTTATCCCAATCCCAATACTGTTTGTCCTTCTGTTTATCTGTCTGTCCTTCTCTGCTCATTTAAAATGCCCCCACTGCATCTAGTATATTTTTATAGGATCAGGGATCTGCTCTTGGATTTATGTCATGTTCCCACCTCGAGGCAGCTTTGTAAGCTTCTCAGCACTTCCCAATTCCAGGTGACTTCAGGCGCTGGGAGGCCTGTGCATCAGCTGCTGCTGTCTGTAGCTGAGTTCCTTCACCCCTCTGCTGTCCTCAGCTCCTTCACACCTGGGCCTCAGGAAATCAATGTCATGCTGACATCACTCTAGATCTAAAACTTGGGTTCTTGgaccaggtgcggtggctcacacctgtaatcccagcaatttgggaggccgaggtgggtggatcacaaggtcaggagatcaagacgatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaatt
agccgggtgtggtggcaggtgcctgtagccccagctacttgggaggctgaggcaggagaatggcgtgaacctgggaggtgtagcttgcagtgagccaagatcatgccactgcattccagactgggagagagagcgagactttctcaaaaaaaaacaaaaaaaaCTTAGGTTCTTGGATGTTCGGGAAAGGGGGTTCTTTATCTAGGATCCTTGAAGCGCCCCCAAGGGCATCTTCTCAAAGCTGGATGTGTGCATTTTCCTGAGAGGAAAGCTTTCCCACATTATTCAGCTTCTGAAAGGGTTACTTGACCCACAGATGTGAAGCTGAGGCTGAAGGAGACTGATGTGGTTTCTCCTCAGTTTCTCTGTGTGGCACCAGGTGGCAGCAGAGGTCAGCAAGGCAAACCCGAGCCCAGGGATGCGGGGTGGGGGCAGGTACGTCCTCTCTTGAGCTACAGCAGATTAACTCTGTTCTGTTTCATTGTTGTTGTTTAGTTTGCG-TTTTGTTTCTCCAACTTCGTGCTT
+
+a score=75360
+s hg18.chr1 81439 811 + 247249719 CATCGGGAAAAGCTTTGGATCACAATTCCCAGtgctgaagaaaaggccaaactctggaaaaaatttgaatattttgagccaaatgtgaggaccacaacctgtgagaacggaaaataaatcctgggaccccagactcactaagccaaagggaaaagccaagctgggaactggcttatgcaaacctgcttcccatctggttcctaaataagatagctattacacaaagacaaaaaagctacatccctgcctctacctccatcgcatgcaaaatgtgtattcagtgaacgctgaccaaagacagaagaatgcaaccatttgcctctgatttacccacacccattttttccacttcttcccctttccccaatacccgcacttttcccctttacttactgaggtccccagacaacctttgggaaaagcacggaccacagtttttcctgtggttctctgttcttttctcaggtgtgtccttaaccttgcaaatagatttcttgaaatgattgagactcaccttggttgtgttctttgattAGTgcctgtgacgcagcttcaggaggtcctgagaacgtgtgcacagtttagtcggcagaaacttagggaaatgtaagaccaccatcagcacataggagttctgcattggtttggtctgcattggtttggtctggaaggaggaaaattcaaagtaatggggcttacaggtcatagatagattcaaagattttctgattgtcaattggttgaaagaattattatctacagacctgctatcaatagaaaggagagtctgggttaagataagagactgtgg
+s panTro2.chr1_random 1070246 811 - 9420409 CATCCGGGAAAGCTTTGGATCACAATTCCCAGtgctgaagaaaaggccaaactctggaaaaaatttgaatattttgagccaaatgtgaggaccacaacctgtgagaatggaaaataaatcctgagaccccagactcactaagccaaagggaaaagccaagctgggaactggcttatgcaaacctgcttcccatctggttcctaaataagatagctattacacaaagataaaaaagctacatccctgcctctacctccatcgcatgtaaaatgtgtattcagtgaacgctgaccaaagactgaagaatgcaaccatttgcctctgatttacccacacccattttttccacttcttcccctttccccaatacccacacttttcccctttacttactgaggtccccagacaatctttgggaaaagcacggaccatagtttttcctgtggttctctgttcttttctcaggtgtgtccttaaccttgcaaatagatttcttgaaatgattgagactcaccttggttgtgttctttgattAGTgcctgtgacgcagcttcaggaggtcctgagaacgtgtgcacagtttagtcggcagaaacttagggaaatgtaagaccaccatcggcacataggagttctgcattggtttggtctgcattggtttggtctggaaggaggaaaattcaaagtaatggggcttacaggtcatagatagattcaaagattttctgattgtcaattggttgaaagaattattatctacagacctgctatcaatagaaaggagagtctgggttaagataagagactgtgg
+
+a score=13698
+s hg18.chr1 82250 144 + 247249719 agaccGTGCATAGTTGCTTCCTGATCAGCTCTTTATTTGATTGAGAGTGAGGCAGGGAAGATTAGAGGGAAGCTTACAGTGGAATTCAGGGCTGAGGCTGCTATTCTTTTGCTCCTTGTAACTTCCTACAGTGTTGTCAGCATC
+s panTro2.chr1 223987967 144 + 229974691 AGACCGTGCATAGTTGCTTCCTGATCAGCTCTTTATTTGATTGAGAGTGAGGCAGGGAAGATTAGAGGGAAGCTTACAGTGGAATTCAGGGCTGAGGCTGCTATTCTTTTGCTCCTTGTAACTTCCTACAGTGTTGTCAGCATC
+
+a score=27022
+s hg18.chr1 82394 321 + 247249719 CACATACTTCTCTG-TGGGGTTggtctcagagccaggttaccttgtcttaggtccagtggcaccctgactggcttggtgtccttgaacaagttacctaacctctccaaacctcagtccctcagttgtaaaattaaaaaaaaaaaaaagaagaagaagagtacctactgtatagcattgatttgaagattgaatgagctggtattatacaacgtttagaagcagtgcctgacacgcaaaaggctctcaacaaatACTATCCTTTACTAATATCCTGTGTGTCTGTATCAGAGCTGGTGGGGTGGAGGGACAGAAACAAGTGGG
+s panTro2.chr1_random 7070572 317 + 9420409 CACATAATTCTCTGGTGGGGTTGGTCTCAgagccaggttaccttgtcttaggtccagtggcaccctgactggcttggtgtccttgaacaagttacctaacctctccatacatcagtccctcagctgtaaaatttaaaaaaaaaaaaa--agaagaagagtacctactgtatagcattgatttgaagattgaatgagctggtattatac---gtttaaaagcagcgcctgacacgcaaaagactctcaacaaatACTATCCTTTACTAATATCCTGTGTGTCTGTATCAGAGCTGGTGGGGTGGAGGGACAGAAAGAAgtggg
+
+a score=198719
+s hg18.chr1 82715 2225 + 247249719 AGAAGGTaaagagatggacaaatgatctctaaagtctctctggcactaacaCAATTCTTTATTATGTGTTTTGTCTGGCTCTTTATATTGATAGCTGTTCCAGAGGCAATCAATAGCTATTAGTCGGTTTTATTCTTATTTTTCTGTCTGATCTTACAGGGGAGCAAACTGTGGCAAAGTATGAACTTACTTCTCAGGAAATTAACCATTATATTGGCAATCACTGTGATTATTTGAACTTCAGCGTCTGGACAAATTTAGTCACATGAAATACAGAAGAGAGATTTCTCATGGTTAAAACGAAGCTCTCTTTATTTGCTTCTGCTAATTAAAAAATCAGAGCTAAAGATACTTAAACACTACAGTTAAAATGCCATGGTTGTCTATTGGCTTAACGAATTCTCTTATGAAATCAACTCTAAAATGCTATCCATCATAAATCATGAAACGCAATTTTTCTTATTCTCTTTAGAGCTTTACAATTCATCTTAAAGACCAGTGTTTACACTCTCTTCTGTAGGTTGTACAATAACTTTTGGCGAGAAAAAATAAAAGTCTGGCTTTCTGACTCATAGGTGTGTTCCCTTTAACAGAAAAAGAAAATATGTCCTCTTTAAAACTGATGATCATTGGTCACCTCAATTTTATTGAAGTTCACTTCTGACCTCTTTAGATGTAGTTCTCTACATAAAACTGCCCAACAGAATTCTCTGTCTGAATGTCTCCTCCACAAACAAAATTTTAAGAACTAAAATTATCATCTTTCCTTCCAAATATGCTCTCCCTATGTCCCCAGGGCTCTCCATGTGTAGAGCTGAGACCATTTGCCACTCAGTTTCCTCACCCAATTAATTACAAGTCCCAACAATTTTCCGGtttttttgtttttgtttttgtttttagacggagtcttgctctgtcaccaggctggtgtgcggtggtgcaat
ctcagctcactgcaacctccgctgcctgtgttcaagcgattctcctgcctcagcttcccaagtagctgggattataggtgtgtgccactacatccagataatttttgtatttttagtagagaggggatttcaccatattggcccagatgatctcaatctcttgacctcatgatctgcccaccttggcctcccaaagtgctgggattacaggtgtgagccgccatccctggccCAGTTTTGCCTTTTTAACATCCCTCAGCTCTTCAAATCCATTTTCTcttctctaacacctccccattccccagctcgtaatgaactcgtaagtagattactacaatcacctcccaaatggtcttcctggctccatcagccttgtgaccttcaagttcattttccacatggatgtcagagtaactttctaaaatgaaaatctgaccacgttactctcttgcctaaatccgcctatggccgctgttaggatcaagtctaaactcccgaccctggaacatcaggtcttcgtgctctgttcactgcttctctacctcacctgcaaccaACACCACTCCCACATCCATATGCTGCTCACCGTGTATCAACATGAACAGGAGGTGGGTGTTTCAGTCCCCAGGAAGACACTGGGCCTTTTCAATCATCTACTGCTGTGTAATAACCACCCCGCAAACTGACCACATGATTTCATTTTGCAAGGGTTCCTTCCTTgggctgtgttcagcaaaagggtttactgagctggcaggtccaagatggcctcactcacaggactggctgttgatgggagccttgatgctcttgggctcaccccttatcctccagtaggttagagcttcttacagtggtttcaggcagcatctgaagacagtaaaagcagaagctccaaggcttcttacattctagcctggaaaatcacatcacattgcttccttcata-tttttttggcaaatcaggttgcaaggcttgcccagattag
ggtaaagaggcaaagaggctccttttcttTTCttttctttttttttttttttttttttttgagtcagaatctcgctctgttgcccaggctggagtgcagtggtgcaatctaggctcactgcaagctctgcctcctgggttcacgtcattctcctgcctcaggctcccaagtagctgagactacaggcacctaccaccacgcctggctaatttttttttattttt------tattttttagtagagactgtgtttcactgtgttagccaggatggtctccatctcctgacctcgtga
+s panTro2.chr1 223988426 2212 + 229974691 AGAAGGTAAACAGATGGGCAAATGATCTCTAAAGTCTCTCTGGCACTAACACAATTCTTTATTATGTGTTTTGTCTGGCTCTTTATATTGATAGCTGTTCCAGAGGCAATCAATACCTATTAGTCGGTTTTATTCTTATTTTTCTGTCTGACCTTACAGGGGAGCAAACTGAGGCAAAGCATGAACTTACTTCTCAGGAAATTAACCATTATGTTGGCAATCGCTGTGATTATTTGAACGGCAGCATCTGGACAAATTTAGTCACATGAAGTACAGAAGAGAGAGTTCTCATGGTTAAAACGAAGCTCTCTTTATTTGCTTCTGCTAATTAAAAAATCAGAGCTAAAGATACTTAAACACTACAGTTAAAATGCCATGGTTGTCTATTGGCTTAATGAATTCTCTTATGAAATCAACTCTAAAATGTTATCCATCATAAACCATGAAACACAATTTTTCTTATTCTCTTTAGAGCTTTACAATTCATCTTAAAGACCAGTGTTTACACTCTCTTCTGTAGGTTGTACAATAACCTTTGGCGAGAAAAAATAAAAGTCTGGCTTTCTGACTCATAGGTGTGTTCCCTTTAACAGAAAAAGAAAATATGTCCTCTTTAAAACTGATGATCATTGGTCACCTCAATTTTATTGAAGTTCACTTCTGACCTCTTTAGATGTAGTTGTCTACGTAAAACTGCCCAACAGAATTCTCTGTCTGAATGCCTTCTCCACAAACAAAATTTTAAGAACTAAAATCATCATCTTTCCTTCCAAATGTGCTCTCCCTATGTCCCCAGGGCTCTCCATGTGTAGAGCTGAGACCATTTGCCACTCAGTTTCCTCACCCAATTAATTGCAAGTCCCAACAAttttcc------------tttttttttttttttaaatggagtcttgctctgtcaccaggctggtgtgcggtggtgcaat
ctcagctcactgcaacctccgctgcctgggttcaagcgattctcctgcctcagcttcccaagtagctgggattataggtgtgtgccactacatccagataatttttgtatttttagtaaagaggggatttcaccatattggcccagatgatctcaatctcttgacctcatgatctgcccaccttggcctcccaaagtgctgggattacaggcatgagccaccatccctggccCACTTTTGCCTTTTTAACATCCCTCAGCTCTTCAAATCCATTTTCTcttctctaacacctccccattccccagctcgtaatgaactcttaagtagattactacaatcacctcccaaatggtcttcctggctccatcagccttgtgaccttcaagttcattctccacatggatgtcagagtaactttctaaaatgaaaatctgaccacgttactctcttgcctaaatctgcctatggccgctgttaggatcaagtctaaactcccgaccctggaacatcaggtcttcgtgctctgttcactgcttctctacctcacctgcaaccaacaccactcccacatccatattctgctcACCGTGTATCAACATGAACAGGAGGTGGGTGTTTCAGTCCCCAGGAAGACACTGGGCCTTTTCAATCATCTACTGCTGTGTAATAACCACCCCGCAAACTGACCACATGATTTCATTTTGCAAGGGTTCCTTCCTTgggctgtgttcagcaaaagggtttactgagctggcaggtccaagatggcctcattcacaggactggctgttgatgggagccttgatgctcttgggctcaccccttatcctccagtaggttagagcttcttacagtggtttcaggcagcatctgaagacagtaaaaacagaagctccaaggcttcttacattctagcctggaaaatcacatcacattgcttccttcatattttttttggcaaatcaggtttcaaggcttgcccagattag
ggt--------aaagaggctccttttcttttcttttcttttcttttctttttttttgtttgagtcagaatctcgctctgttgcccaggctggagtgcagtggcacgatctaggctcactgcaagctctgcctcctgggttcacgccattctcctgcctcaggctcccaagtagctgagactacaggcacctgccaccacgcccggctaattttttttttttttttttttgtattttttagtagagactgtgtttcactgtgttagccaggatggtctccatctcctgacctcgtga
+
+a score=51505
+s hg18.chr1 84940 586 + 247249719 tccTTGCAAAGGGACATGCAGACCACATTAGTGAGAATATGTGCCTGTATTTTGCAATCTGTAACATGGGCATAAACTAAATGTTTTCCAAAGGGAATAGGGCAAAACAAAAAGGACCTTGACCACTCCTT-GGCCCTGAATAAATCCAGGAAGCCTAAGAGTATGACTATCCTGAGGTAGAAAGAGGGTCACATGCTGGATAAGAGGTACCTGGGCTCTCCACTTACAAGAAGAGAGCATGGTTACATTTATAATCACCATTCCCAACATGCTGTGAGTGCAGGCAGCTACCAGGAGGAGAACAAAGGAAATAACCAGGACACTCATCTCTAAACCTGTTAATTTAATCACACGGAACACTTCTATTTAAAATTCCCGAGAGTTAAGATGTAAGAATGCTTATCAAGGTAAATGCTGTTCACACTGCTTGGAGTGTCAGGCCTAGATCTCTATCCATCAGAaacaacaatatcaataacaacaacagcaacaTGATGATGGGGCAATTTCTTAAAAGCACCATGTATTTTATCGATACATGTCCGTTGCAGAAAATCCAGGTGAATCCAAAGAAGAAATAAATGTC
+s panTro2.chr1_random 7071473 587 + 9420409 TCCTTGCAAAGGGACATGCAAACCACATTAGTGAGAGTATGTGCCTGTATTTTGCAATCTGTAACATGGGCATAAACTAAATGTTTTCCAAAGGGAATAGGGCAAAACAAAAAGGACCTTGACCACTCCTTTGGCCCTGAATAAATCCAGGAAGCCTAAAAGTATGACTATCCTGAGGTAAAAAGAGGGTCACATGCTGGATAAAAGGTACCTGGGCTCTCCACTTACAAAAAGAAAGCATGGTTACATTTATAATCACCATTCCCAACATGCTGTGAGTGCAGGCAGCTACCAGGAGGAGAACAAAGGAAATAACCAGGACACCCATCTCTAAACCTGTTAATTTAATCACATGGAACACTTCTATTTAAAATTCCCGAGAGTTAAGATGTAAGAATGCTTATCAAGGTAAATGCTGTTCACACTGCTTGGAGTGTCACGCCTAAATCTCTATCCATCAAAAACACCCATATCAGTAACAACAACAGCAACCTGATGATGGGGCAATTTCTGAAAAGCCCCATGTATTTTATCAAAACATGTCCGTTGCAAAAAATCCAGGTGAATCCAAAAAAAAAATAAATGTC
+
+a score=89302
+s hg18.chr1 85526 984 + 247249719 TTCCACAATCCCATAGCCCAGAGCTAACTAACCACTATAAAGAACCCAGCGTGGTTTTAACTAATGGATCAAAAGATGCTCATCAAAGGCTCTGAGCTTTCCTGAGTGCTAACAGGAAACATCCAGCATCACTGGTCTCTCCAAGGCTGCAGGTGTCTTTGCCCATAGTGCCTGTTTTGTGTCAGGGAAAGAATCAACCTGGGAGCCAAGCCCAGGAATCAGGATGACCAAGACATACTGCACAAGGAGGGAACAAACCCATCCAAGGACACTCAAGGACAAATCAAGCAAATGAATTTAAGGGAGACGTGCTCATGGTCTGCTTTGCTGCTCAGCATGGCTGGGAGGCACAGTGGAAGATCATGCATCCTGCCCCTGGGACTCCTCTGCCAGAGCCTGAGAGCTTTCTCCTGCCCACAGGCTAGGGGTAGGGCAGTTGGAATTGATCCATGCCTTCTAGCTAGACTGTGGGTCCCCTCAGTCTTGGGCATGGTGACAGCCCAGCATCAGACAGAGGTCAGTATCAAACTAGAAAATTTAATAAATACTGTCAGATTTGTAGACCCAAGAAAATATAAACTGCCAATCACGGAGGAAAAAAA-TCTCTCAATGATCTTATCTTTATATGATTCCCTTGCTGCCTGGAGATTGACATTTCCTTGGGGATAATCTGGTCATAGGATTGGTGAAGGTGGAAGGGAGGCAACCTCCAAAGGTGGGGCCCTCTGCTCACCTGGGACAGGGAGGGCCTGAGGTAGGTGTCTGTGTGGGCTGGGGAGGAGGATGGGAGCAGTGCTTCTAGATGTTTCCACTTTCTCCTCATTAGATAATAACGAATGGGTGATTTCCCTAGTCACTGCAGTGTGAGGAAATCTACAAAATTAATTTCACAATACGCTTTACAGGATAGGTGGAGAAACACATGAAGTACAACTGCAGTGGGTTAT
AAAAAACGGCCTTTCGAGTTGAGCAATAAATTCGTTC
+s panTro2.chr1 223991333 983 + 229974691 TTCCACAATCC-ATAGCCCAGAGCTAACTAACCACTATAAAGAACCC-GTGTGGTTTTAACTAATGGATCAAAAGATGCTCATCAAAGGCTCTGAGCTTTCCTGAGTGCTAACAGGAAACATCCAGCATCTCTGGTCTCTCTAAGGCTGCAGGTGTCTTTGCCCATAGTGCCTGTTTTGTGTCAGGGAAAGAATCAACCTGGGAGCCAAGCCCAGGAATCAGGATGACCAAGACATACTGGACAAGGAGGGAACAAACCCATCCAAGGACACTCAAGGACAAATCAAGCAAATGAATTTAAGGGAGACCTGCTCATGGTCTGCTTTGCTGCTCAGCATGGCTGGGAGGCACAGTGGAAGATCATGCATCCTGCCCCTGGGACTCCTCTGCCAGAGCCTGAAAGCTTTCTCCTGCCCACAGGCTAGGGGTAGGACAGTTGGAATTGATCCATGCCTTCTAGCTAGACTGTGGGTCCCCTCAGTCTTGGGCATGGTGACAGCCCAGCATCAGACAGAGGTCAGTATCAAACTAGAAAATTTAATAAATGCTGTCAGATTTGTAGACCCAAGAAAATATAAACTGCCAATCACAGAGGAAAAAAAATCTCTCAATGATCTTATCTTTATATGATTCCCTTGCTGCCTGGAAATTGACATTTCCTTGGGGATAATCTGGTCATAGGATTGGTGAAGGTGGAAGGGAGGCAACCTCCGAAGGTGGGGCCCTCTGCTCACCTGGGACAGGGAGGGCCTGAGGTAGGTGTCTGTGTGGGCTGGGGAGGAGTATGGGAGCAGTGCTTCTAGATGTTTCCACTTTCTCCTCATTAGATAATAACGAATGGGTGATTTCCCTAGTCACTGCAGTGTGAGGAAATCTACAAAATTAATTTCCCAATACACTTTACAGGATAGGTGGAGAAACCCATGAAGCACAACTGCAGTGGGTTAT
AAAAAATGGCCTTTCAAGTTGAGCAATAAATTCATTC
+
+a score=248118
+s hg18.chr1 86510 2747 + 247249719 AAGCAGCCATTCTGAAGGACAAAC-TGGCTCTGTATTTAAGAGGGGCATTCCAGCACTTCTCTAGCCACTGGGTTGACAATGACTCACCAAAGCCTCTGGTAGCCACCACAGGACACCCAGAGCATATGTTTTAAAGCTGAACACCAAACTGCGGACTTCGGGAGTAAGTGAACTGACTGGTTTTTATTTTGTTTTACTGCTTTTAACATTACAGTAACTGTTACAGGTTCCAGCAGGCTAACTGGGTGGAAATGAGTTTGGTTTCACTTAGTCTCTCTAAAGAGAAAGCAAGTCGGTAGACTAATACCTAATAAAAGCAAAGCTGCCAACAATTGAAATTGCCTAGGCTGCTCTGTGTGTCCCACAtgcatgggtgtgggtgccagtgtgtgtgcgtgtgtgcatgcatgtgcatgtgtgtTGGGATAGAGTGGTAAGAAAATGGGAAATAATAAGAATGTTCAGTCCATAGCCCTTCATTATAAAAAGGTGAGCTGTAATAAATACTAGTGCCACATTTAGCCAAAACTTTACTCCAGCCAAAGGTGATATTTTCATGATAACATCCTGTGATTGCTTTGTTCTTCGTCTTTTATGTTCTTCCTAGATGGGCTCAGAACATACAAGAATTAAGTACACATCTTATTTTCCAGTGATAATGCTACCGGCAAATTCTGTTGTTTGTATAAACATCAGCCATGTTTATATAACTAAACTAGTGTTTTGTTTTGTCAATTCAGCAAGAAATTAGACCAAATGGTGGCTTAATGCTGCATTGATTTGGCTATCAATTTGTTTTCACTTTTCTGCAAAATAATTAATACATTATTAAATTGAATTGTGCTGATGCCACAGTTGTTCTTATCTCAAGTGTCTTAAAATTCATTTAATTTGTTTTTCCTTTGGTTTCATTATTCAAATTTTAACTTCAGTTCTCAAGA
TTTTATCTGATGGAAGAGATGGAGTCCATTACTAAGGACTCCATTGTGCTCCATCATGCCAGAGTTGTAAAATAGATCTTTTAAAGGAAATTTACTGTGATTTTTTTTCTATTTAAGAGCTTCCTCTCCAGTTGAGCATGTAAGAAAATTATACCAGGAGAATACAGTAAACTCTATGAGGCAAGCTATAAACATGTAGCATTGTGATTAGGGctggttctccttctagagacatggtaggattgcaatttcataccatccttgaagttagagagagccacgtgactcatttagccaatgaactgtgagcagaatgacatgtcacttccagctgaagctttaaCAATCTGAGAGACATTCATACATTTTCCATGTGCTGTAGCCTTATACCCAAAGCCTGGGTCCCAAGTGACCATGACAGGCAGAGCTCCCTGttgagccacagagatttagagaatggctgttaacacagcataatccagcccatcctgactaatCTGATATTAACATGTATAATAAAGAATTCTATCAATGCTGAGGGAAGATGACTAGTTAAGGTCCTAGGTTGCAAGTCTCAAAACCTCTTCTAAGGATTGTAGACAGGAAATTAAATGACTTCTAGTCCCTAGAGTTCCCAATCTCCTACCATCCCATCCTAATATGACAGAAGTAATTCCTGAGTTGCTTCTGAAACCAGAGCTTCCCTCAGAACCCTTAGCCTGCCAGATGGCTTCTTGGAGAGCCCTCACTCACTTTTCTCCTTCTGCTATTGCTGCTCATTCATTCCAGTTTTTAAAAATTCATCTTTATCCAGGAACCTCGCTTCTAGAAAAGTCATACAGGTGCTTCCAGGAGGCTACATGGGCACCCATATTTTTCTAGCCACTTTCATTAGACCAATGCAGCAGAGAAGAAAAGCCTCAATAATTATTATGACATGGCATGTTAGGATACCAAGTAAATTGCATTTGTAAAATGTGATTTTCTGT
TGGTGTTCACTTCAGCTCTACTGACATTTGGTAAGTATTATTGACTGACTGACTAACTAATGTGGTCATTAGTCTTCATAAAGAAAGGCTCTCTACAAAAACGGAGGGATGCCCTTTTTCTGGCATTTAATACGTAAGAAATTGCCTCCAATAGAAACCAGAGTTGCCTGATTACTATCAGCACAGGAGAAATGTATTAATGTGCCTTTCTAGTAACAGGTTTTTAGAAAGTCAAATATAAACAAATCTGTCTATTTGTGTGTGTGCATGTGGTAGTGGGGAGGGAAGAAAAAAGGAGGGGGAGAGAAAGAGAAATAAGAACCAAGTTTATTATACTGTATTCAGGGGGAAAAAATTTTCCCAAGGTCCTAACAGAAGAGCAAAGTGCCACTGTCAATAGCCTCAGTAGTGTTAGGGTTGCTtttatttatttatttatttatttatttatttatttatttatttttcc--ttttttttctttctctttttttcttcttttttttttcttttctttc------ttttttttttttttttttttttttggacagagtctcacactgtcacctgggctggagtgcattggtgcaatctcgactcactgcaacttctgcctcccaggttcaagtgattctcctgcctcagccgcccaagtagctgggattacaggtgtctgccaccgtgcctagctaatttttttgtatttttagtagagatgaggtttcactatgttggccaggctggtctcaaactcctgacctcatgatccacccacgttggcctcccaaagtgctgggattacaggcgtgagccaccgcccctg
+s panTro2.chr1_random 7073124 2744 + 9420409 AAGCAGCCATTCTGAAGGACAAACGTGGCTCTCTATT-AAGAGGGGCATTCCAGCACTTCTCTAGCCACTAGATTGACAATGACTCACCAAAGCCTCTGGTAGCCACCACAGGACACCCAGAGCATATGTTTTAAAGCTGAACACCAAACTGCGGACTTCGGGAGTAAGTGAACTGACTGGTTTTTATTTTGTTTTACTGCTTTTAACATTACAGTAACTGTTACAGGTTCCAGCAGGCTAACTGGGTGGAAATGAGTTTGGTTTCACTTAGTCTCTCTAAAGAGAAAGCAAGTCGGTAGACTAATACCTAATAAAAGCAAAGCTGCCAACAATTGAAATTGCCTGGGCTGCTCTGTGTGTCCCACAtgcatgggtgtgggtgccagtgtgtgtgcgtgtgtgcatgcatgtgcatgtgtgtTGGGATAGAGTGGTAAGAAAATGGGAAATAATAAGAATGTTCAGTCCATAGCCCTTCATTATAAAAAGGTGAGCTGTAATAAATACTAGTGCCACATTTAGCCAAAACTTTACTCCAGCCAAAGGTGATATTTTCATGATAACATCCTATGATTGCTTTGTTCTTCGTCTTTTATGTTCTTCCTAGATGGGCTCAGAACATACAAGAATTAATTACACATCTCATTTTCCAGTGATAATGCTACCGGCAAATTCTGTTGTTTGTATAAACATCAGCCATGTTTATATAACTAAACTAGTGTTTTGTTTTGTCAATTCAGCAAGAAATTAGACCAAATGGTGGCTTAATGCTGCATTGATTTGGCTATCCATTTCTTTTCACTTTTCTGCAAAATATTTAATACATTATTAAATTGAATTATGCTGACGCCACAGTTGTTCTTATCTCAATTGTCTTAAAATTCATTTAATTT-TTTTTCCTTTGGTTTCATTATTCAAATTTTAACTTCAGTTCTCAAGA
TTTTATCTGATGGAAGAGATGGAGTCCATTACTAAGGACTCCATTGTGCTCCATCATGCCAGAGTTGTAAAATAGATCTTTTAAAGGAAATTTACTGTGATTTTTTT-CTATTTAAGAGCTTCCTCTCCAGTTGAGCATGTAAGAAAATTATACCAGGAGAATACAGTAAACTCTATAAGGCAAGCTATAAACATGCAGCATTGTGATTAGGGctggttctccttctagaaacatggtaggattgcaatttcataccatccttgaagttagagagagccacgtgactcatttagccaatgaactgtgagcagaatgacatgtcacttccagcagaagctttaagaatctgagagacattcatacgttttccatgtgctgtagccttatacccaaagcctgggtcccaagtgaccatgacaggcagagctccctgttgagccacagagatttacagaatgtctgttaacacagcataatccagcccaacctgactaatCTGATGTTAACATGTATAATAAAGAATTCTATCAATGCTGAGGGAAGATGATTAGTTAAGGTCCTAGGTTGCAAGTCTCAAAACCTCTTCTAAGGATTGTAGACAGGAAATTAAATGACTTCTAGTCCCTAGAGTTCCCAATCTCCTACCATCCCATCCTAATATGACAGAAGTAATTCCTGAGTTGCTTCTGAAACCAGAGCTTCCCTCGGAACGCTTAGCCTGCCAGATGGCTTCTTGGAGAGCTCTCACTCACTTTTCTCCTTCTGCTATTGCTGCTCATTCATTCCAGCTTTTAAAAATTCATCTTTATCCATGAACCTCGCTTCTAGAAAAGTCATACAGGTGCTTCCAGGAGGCTACATGGGCACCCATATTTTTCTAGCCACATTCATTAGACCAATGCAGCAGAGAAGAAAAGCCTCAATAATTATTATGACATGGCATGTTAGGATACCAAGTAAATTGCATTTGTAAAATGTGATTTTCTGT
TGGTGTTCACTTCTGCTCTACTGACATTTGGTAAGTATTATTGACTGACTGACTAACTAATGTGGTCATTAGTCTTCATAAAGAAAGGCTCTCTACAAAAACGGAGGGATGCCCTTTTTCTGGCATTTAATACGTAAGAAATTGCCTCCGACAGAAATCAGAGTTGCCTGATTACTATCAGCACAGGAGAAATGTATTAATGTGCCTTTCTAGTAACAGGTTTTTAGAAAGTCAAATATAAACAAATCTGTCTATTTGTGTGTGTGCATGTGGTAGTGGGGAGGGAAGAAAAAAGGAGGGGGAGAGAAAGAGAAATAAGAACCAAGTTTATTATACTGTATTCAGGGGGAAAAAATTTTCCCAAGGTTCTAACAGAAGAGCAAAGTGCCACTGTCAATAGCCTCAGTAGTGTTAGGGTTGC--------atttatttatttatttatttatttatttatttatttttccttttttttttctttctctttttttcttcttttttttttcttttctttctttcttttttttttttttttttttttttttggacagagtctcacactgtcgcctgggctggagtgcattggtgcaatcttgactcactgcaacctctgcctcccaggttcaagtgattctcctgcctcagccgcccaagtagctgggattacaggtgtctgccaccatgcctagctaatttttttgtatttttagtagagatgaggtttcactatgttgg-caggctggtctcaaactcctgacctcgtgatccacccaccttggcctcccaaagtgctgggattacaggcgtgagccaccgcccctg
+
+a score=206892
+s hg18.chr1 89257 2260 + 247249719 gccAGGATTGCTTTTACAGCCAGTCTTCAGGTGCCCACTGTAGGAACAATGTCATTTAACCCTCGGGATTATTCTGTGCCAAATATGGATAATGACTAATATCCAACACAGATATTCTCAGCTCAGAAGAGCAATTAGCAAATTCATAAATTAAGTGCTTGCTTCCTCTTTAGTCAAATACAAACGTTTGTTAAAAGATATTATTTTGCTTTACACTTTTTCTCTCAGAAATAAGCAGATGCTTGAATTCCCACAGTGCTGCTTGAGCCTCACACCATGTCATCCTGCCAGGCACCCAGATCCAGTTCTAGAGTTTCACATGATCGTGAgtgttggttaataagtcaatgtgaactgggaggggagatttttcaggagtgccacagggctctccctttaatcACATACACTCCCTGCTTTCATTGGAAAGTGTATAATGATGTCAGAGTGCCCCAGAATGGAGCTAGTTGGAAGACTGCCGTCATAGGGATGCCTTAGTGAATTAATAAGGTTTTAATTTCTGGCTCTCAACTTTGTAGATGTAAAAGTTGATTTATCAATATGTGAGAAAGGATGAATCTTTCTGAAGGTTATGTCATCACACTCACTAAGCACACAGAGAATAATGTCTAGAATCTGAGTGCCATGTTATCAAATTGTACTGAGACTCTTGCAGTCACACAGGCTGACATGTAAGCATCGCCATGCCTAGTACAGACTCTCCCTGCAGATGAAATTATATGGGATGCTAAATTATAATGAGAACAATGTTTGGTGAGCCAAAACTACAACAAGGGAAGCTAATTGGATGAATTTATAAAAATATGCCTCAGCCAAAATAGCTTAATTCACTCTCCCTTATCATAAGGATAATCTTGCCTAAAGGGACAGTAATATTAAAGACACTAGGAATAACCTCTGTACTTTGGACAGTAGACCTGC
ATAGCCCATTAGGCCTCAATGAAGTCTTATGCAAGACCAGAAGCCAATTTGCCA-TTTAAGGTGATTCTCCATGTTTCTGCTCTAACTGTGCTTCACAATACTCAAAACACTAAATCAGGATGTTTCCTGGAGTTCAGGGAGCTGTCCGTGTTACTGAGCAGTTCTCAGCAACACAAAGATCCTACTGACTCCTCATCAGACTTCTTTCTCACTGGAATTTTACACCTGGGCTGTTAACACCAGGCCAGGTCAAATTCAAAGGAGAGAAAAAAGCTCATTATGAAGGGTAAAATCCAAAACACTGTGCATAAAGATATG---GCACAATTTTTATACATAAAGATTTCATAAAACCAAAGCATCAGGAAATGAAAAGAGATACAGAAAGAAAAATGATGGTAAATGAGACATTAATTTACCCTTCTAATCTCTATCACAGCAAAAAGATAATTAAAAAATCTATATGAGGACCACAAAATACACAAAAATTATGTAGCAAAGCCTATAGCCTGAAAAAGTAAACATTGAAATTTGTATGTCCATAAAATGTTTACAAAATTCAGTACATATTACACACCCCACCCTAAAAACATCTAAGCAAAGTAGAGAATGTAGAAATGCTACAGATTATATTCTCTGATTATGACACAACAAAACTAGAAATTACAGCATGGAAATTTAAAAGCTTTCTCTTAAATAATTCTATGTCAAAAAGAAATCCAggccgggtacagtggctcatgcctgtaattccagtactttgggaggccaaggtgggcaggtcacttgaggtcagcagttcaagaccagcctcgtcaacatggtaacaccctgtctctactaaaaatacaaaaattagctgggcctggtggctcatgcctgtaatcccagctacttaggaggctgaggcaggagaattccttgaacccagaaggtggaggttgcagtgagctgagattgcaccactgcactccagcctaggtgacac
agcaagactctgtcaaaaaaaaaa--aaagaaaTCCAAATAAAATTTCCAGAATATGTGGAAAATAGTGACAATAAAAATATTAcacatgtgtaatcccagcattttgagatgccaaggtggcaggatcacttgagaccaggagttcgcaaccagcctggacaacatagggagactccatctccacacacgcc-aaaaaaaattttaaatagccaggtatagtggtacttcctgtaatcccatctacttgggaggctaaggtgggagaatcacccaacctcaggagttcagggcttcagcaagccatgatcatatcactgcactccagcctcagca
+s panTro2.chr1_random 7087943 2267 + 9420409 GCCAGGATTGCTTTTATAGCCAGTCTTCAGGTGCCCACTGTAGGAACAATGTCATTTAACCCTCGGGATTATTCTGTGCCAAATATGGATAATGACTAATATTCAACACAGATATTCTCAGCTCAGAAGAGCAATTAGCAAATTCATAAATTAAGTGCTTGCTTCCTTTTTATTCAAATACAAACGTTTGTTAAAAGATATTATTTTGCTTTACACTTTTTCTCTCAGAAATAAACAGATGCTTGAATTCCCACAGTGCTGCTTGAGCCTCACACCATGTCATCCTGCCAGGCACCCAGATCCAGTTCTAGAGTTTCACATGATCATGAgtgttggttaataagtcaatgtgaactgggaggggagatttttcaggagggacacagggctctccctttaatcACATACACTCCCTGCTTTCATTGGAAAGTGTATAATGATGTCAGAGTGCCCCAGAATGGAGCTAGTTGGAAGACTGCCATCATAGGGATGCCTTAGTGAATTAATAAGGTTTTAATTTCTGGCTCTCAACTTTGTAGATGTAAAAGTTGATTTATCAATATGTGAGAAAGGATGAATCTTTCTGAAGGTTATGTCATCACACTCACTAAGCACACAGAGAATAATGTCTAGAATCTGAGTGCCATGTTATCAAATTATACTGAGACTCTTGCAGTCACACGGGCTGACATGTAAGCATCGCCATGCCTAGTACAGACTCTCCCTGCAGATGAAATTATATGGGATGCTAAATTATAATCCGAACAATGTTTGGTGAGCCAAAACTACAACAAGGGAAGCTAATTGGATGAATTTATAAAAATATGCCTCAGCCAAAATAGCTTAATTCAGTCTCCCTTATCATAAGGATAATCTTGCCTAAAGGGACAGTAATATTAAAGACACTAGGAATAACCTCTGTACTTTGGACAGTAGACCTGC
ATAGCCCATTAGGCCTCAATGAAGTCTTATGCAAGACCAGAAGCCAATTTGCCATTTTAAGGTGATTCTCCATGTTTCTGCTCTAACTGTGCTTCACAATACTCAAGACACTGAATCAGGATGTTTCCTGGAGTGCAGGGAGCTGTCCGTGTTACTGAGCAGTTCTCAGCAACACAAAGATCCTACTGACTCCTCATCAGACTTCTTTCTCACTGGAATTTTACACCTGGGCTGTTAACACCAGGCCAGGTCAAATTCAAAGGAGAGAAAAAAGCTCATTATGAAGGGTAAAATCCAAAACACTGTGCATAAAGATATGTGTGCACAATTTTTATACATAAAGATTTCATAAAGCCAAAGCATCAGGAAATGAAAAGAGATACAGAAAGAAAAATGATGGTAAATGAGACATTAATTTACCCTTCTAATCTCTATCACAGCAAAAAGATAATTAAAAAATCTATATGAGGACCACAAAATACACAAAAATTATGTAGAAAAGCCTATAGCCTGAAAAAGTATACATTGAAATTTGTGTGTCCATAAAATGTTTACAAAATTCAGTACATATTACACACCCCACCCTAAAAACATCTAAGCAAGGTAGAGAATGTAGAAATGCTACAGATTATATTCTCTGATTATGACACAACAAAACTAGAAATTACAGCATGGAAATTTAAAAGCTTTCTCTTAAATAATTCTATGTCAAAAAGAAATCCAggccgggtacagtggctcatgcctgtaattccagtactttgggaggccaaggtgggcaggtcacttgaggtcaggagttcaagaccagcctcatcaacatggcgacaccctgtctctactaaaaatacaaaaattagctgtgcctagtggcgcatgcctgtaatcccagctacttaggaggctgaggcaggagaattccttgaacccagaaggtggaggttgcagtgagctgagattgcaccactgcactccagcctacgtgacac
agcaagactctgtcaaaaaaaaaaagaaagaaaTCCAAATAAAATTTCCAGAATATGTGGAAAATAGTGACAATAAAAATATTACACATGtgtaatcccagcattttgagatgccaaggtggcaggatcacttgagaccaggagttcgcaaccagcctggacaacatagggagactccatctccacacacgccaaaaaaaaattttaaatagccaggtatagtggtacttcttgtaatcccatctacttgggaggctaaggtgggagaatcacccaacctcaggagttcagggcttcagcaagccatgatcatatcactgcactccagcctCAGCA
+
+a score=160884
+s hg18.chr1 91517 1775 + 247249719 acagagcaagatcctatctcaaaaaaaaaaaaaaaaTCACATGTGGGAAATAGCTATAGCACAAtaaaaataaatgtattaagtatgaacaacaaaaaagctagtaaaggttgaacaacaactatccttaggaaagtggaaataatgtattaataaatatgaaagcaggctagccacggtgactcacatctgtaatcccagcactttgggaggctgaggcaggcagatcacctgaggtcaggagttccagaccagcctggccaacatggtgaaatcttgtctctcctacaaatacaaaaactagccaggcttggttgtgcactcctgtaattcgagctacttgggaggctgaggcaggagaatctcttgaacctgagaggcagaggttgcagtgagccaagatcatgccactgcactccagctggggcaacagagtgacactccatctcaaaataaataaataagaaagcagaaactaataaactagaaaacagaaacatagaactaatttataaatcaaagcactatgccttgaaaagaGGGAGAAAAATTGTGAATTAAGGAAGGGAAGAGATGGTTGGAGAGGAGGTGGGAGAAGGCAGAGATAATTGAAGGAGCAAAAGCATCTGGAGAAGCAAAGCCACTGAAAGATGAACAGGGCTCTGAAAGAGATGCTTGACTGCTATCTTTTCAAATGACTGCAGTTCCCAGTGACATCATTTTTCTCCTCCCTGGAAGTCTGAGGGGCAGTTCACTTATCTCCTCCCCTCCCCTACTCCTCACCCCACACTCAAAACCTGTCTATGCTCCTTTCATTCTCATATGACAGATTTCAGATGGCATTCTTATTTCCCTGATTTCTTTTTGAGATAGCTTGCATTTCCCTCCTCTATataaagccaccgtttatcaaatgcctacatggaccaagcagtccacaagggctt
cacagacagttttactaaactcatgccaaaactttcaggttttatacctaccttatagataaagaaattgaagcttatagagtttaagtaatgttcccaaagcctcgtggctagtaattcaaacctaatttctgcctactccaaagtctatttttccttatgatactctactgcctctcCAtggataaagacagagatcacatattaataaaatttgcacaaagtcggcaaattgttgaaagggaaggctaagatgattaataaaatcaagagccagatgatctcaacaacctgaaataactggctgacaaccaatttgaataactccctgcgggtgaagttcaaagtactatttgggtttttttttaaagtttggctgggtgcagcggctcacgcctgtaatccaagcacttagggaagccaaggtgggcagatcatgaagtcaggagttgaagaccagcccggtcaacatggtgaaaccccatctctactaaaaataaaaaattagccgggcctgctggtggatgcctgtagtcccagctactcgggaggctaaggcaggagaatcgcttgaacccaggaggtggaggttgcagggagccgagatcgcaccactgcactccagcctgggcgacagagcgagattccgtctcaaaaagtaaaataaaataaaataaaaAATAAAAgtttgatatattcagaatcagggaggtctgttgggtgcagttcatttgaaaaattcctcagcattttagtGATCTGTATGGTCCCTCtatctgtcagggtcctagcaggaaattgttgcactctcaaaggattaagcagaaa
+s panTro2.chr1 223998133 1767 + 229974691 acagagcaagatcctatctc---aaaaaaaaaaaaaTCACATGTGGGAAATAGCTATAGCACAAtaaaaataaatgtattaagtatgaacaacaaaaaaactagtaaaggttgaacaacaactatccttaggaaagtggaaataatgtattaataaatatgaaagaaggctaggcacggtgactcacatctgtaatcccagcactttgggaggctgaggcaggcagatcacctgaggtcaggagttccagaccagcctggccaacatggtgaaatcttgtctctcctacaaatacaaaaactagccaggcttggttgcacactcctgtaattccagctacttgggaggctgaggcaggagaatctcttgaacctgggaggcagaggttacagtgagccgagatcatgccactgcactccaactggggcaacagagtgacactccatctcaaaataaataaataagaaagcagaaactaataaattagaaaacagaaacatagaactaattcat-----aaagcactatgccttgaaaagaGGGAGAAAAATTGTGAATTAAGGAAGGGAAGAGATGGTTGGACAGGAGGTGGGAGAAGGCAGAGATAATTGAAGGAGCAAAAGCATCTGGAGAAGCAAAGCCACTGAAAGATGAACAGGGCTCTGAAAGAAATGCTTGATTGCTATCTTTTCAAATGACTGCAGTTCCCAGTGACATCATTTTTCTCCTCCCTGGAAGTCTGAGGGGCAGTTCACTTATCTCCTCCCCTCCCCTACTCCTCACCCCACACTCAAAACCTGTCTATGCTCCTTTCATTCTCATATGACAGATTTCAGATGGCATTCTTATTTCCCTGATTTCTTTTTGAGATAGCTTGCATTTCCCTCCTCTATataaagccaccgtttatcaaatgcctacatggaccaagcagtccaaaagggctt
cacagacagttttactaaactcatgccaaaactttcaggttttatacctaccttataggtaaagaaattgaagcttatagagtttaagtaatgtttccaaagcctcgtggctagtaattcaaacctaatttctgcctactccaaagtctatttttcctcatgatactatactgcctctcCAtggataaagacagagatcacatattaataaaatttgcacaaagtcagcaaattgttgaaagggaaggctaagatgattaataagatcaagagccagatgatctcaacaacctgaaataactggctgacaaccaatttgaataattccctgcgggtgaagttcaaagtactatttggggtttttcttaaagtttggctgggtgcagcggctcacgcctgtaatccaagcacttagggaagccaacgtaggcggatcatgaagtcaagagttgaagaccagcctggtcaacatggtgaaaccccgtctctactaaaaataaaaaattagccgggcgtgctggtggatgcctgtagtcccagctactcgggaggctaaggcaggagaatcgcttgaacccaggaggtggaggttgcagggagccaagatcgcaccactgcactccagcctgggcgacagagcgagattccgtctcaaaaaattaaataaaataaaataaaaaataaaagtttgatatattcagaatcagggaggtctgttgggtgcagttcatttgaaaaattcctcagcattttagtGATCTGTATGGTCCCTCtatctgtcacggtcctagcaggaaattgttgcactctcaaaggattaagcagaaa
+
+a score=258242
+s hg18.chr1 93292 2826 + 247249719 gagtttaatgaagggtctctttccagggttaagggaactgctagggtttggatatttgaccactccaaactcatgttgaaatgtgatccccattgttggaggtggggcctaatgggaggtgttttggtcctgagtgtggacctctcacgaatgtcttggtgccatccaagtgagttcttgctcgctcttttttttctttttgagatgtagtttcactcttgctgcccaggttggaatgtagtggtgcgatcttggctcactgcaacatccacctcacgggttcaacccattctcctgtgtcagcctccagagtagctaggattacaggtgcccaccactatgcccagctaatttttggtatttttagtagagacggggtttcaccatgttggccaggctggtctcaaactcctgacctcaggtgatacacctgcctcggcctcccaaagtgctgggattacaggtgtgagccaccatgcctacctagttctagctctcttaattcccacaagagctggttgttaacaagagcctggcacaaacccctctctctc--gccacgtgatctctgcacatgccagcttcccttccccttctgccatgagtggaaacagcctaacgccctcaccagaagcaaatggtggcaccatgcttcttgcacaccttcagaactgtgagccaaataaacctctcttctttaaaattattcagcctctggtattcctttataacaacacacacacacacacacacacacatacacacacacgcaaaagcagactaaaacaggaactaattagaaatggtgatgcaccgagggattggcaCCGAGGCTCCCCAACAGGAACTGAGGTCATGGATAGAAGGACACATTCATGTTATTTTTTTCTAATGGTTAAGTAATTATTTGctcttactctcaaaatttctgccaaggcctcc
catggaccaaactcaactagaatctaggaagcagagaacctgagtgttgcattcagcagaagtcagcttcctagggaatcttgcaggaagggtgaaggtagagaatctggtggggaagcaagcaaatgcccatcacaTGCACTTTCCTccaacagagcgactcagatgctataaaacttgctaacacagtctcagggtctgatcacagtaacatacaatccaggttttaatcatcagaaatcacagtcctattgtcttctgcacagacccaaacacacttggaggtcatgttcaatatgaatacctcacagagaaggaaatttacacgcgagaagtacatctgcagaaagccagctggcatgtcaaccattcaaaaactcagggtgttctggataaagaagactcaggaagacaagtatgaagcataatctgtgacattccatgcggcagacattagacacatacaagagagttgttggaaagcggaatttatcttcatataaacaacactgagctaaatctcaatatttcagatctctagaactatccatcagtgaaatggattgcaaatacaaagagtaataccatgtcacttaagaatagaatcatggacgaggctgccacctgctgttgggggccactgcagaagaaattccagaacactggactggagagcacctcactttccttacagctctaagtttctgACTCAGTGACCTGATTCACTACCATATACACAAAGACCCACTTACACAAATGACTGTTCTTCACACTAGGCCCATGGAGACAGGGATAAAATTCTGAATTTGCTCAGATACCTTCTCCGCTACTGACATCTAGGCATTACACAATTCATCTCTTCATATTTAACCTTTGAAGTTTGCTACTTCTCAGAGAGACTAATGAGTAGTGAGCAAATATCCTGAAGCTGAGAATGCTTCTACCTCCTCTCAAAACAACGGAATATTCATCAAAACACAGCAGTTCTG
CACTTAACTTTAGGCCTTTTCTAACACCTTGTTTCTTGGCAGTAACTGTGGCCAGAATAGCTCTTTCCACAGATAAAGGACCTTTTGAAAGGATAGGGTCTCTAGATAGAAAAGCAAATGCCTCATTCCAGAAGGTCTTCAAGAAGAAAATGTTGTGGTGATAACAAACATAACTGATTATAATCTATTCTGTGAAAAAAGCTTATGAAACAGTAGATGTGTGTATCTAGTACATAAGAGCTGAATGTCAATATATATATA--GATATATACacacactcaaataaataatagttatctctaactagagaaattctagttgccttatattttcttctttttccttactatattttctacaataaacatgtgtttttaacaagaaaaGTCTTTTCTGGTGTGCTTTTTAATTTTCTTTGTTTAAGTGAGAGTGAGGCTACATAACTACATGGCTAGGTAGACTTTTAGAAAACTTGGCTGCTCTAGAAAATTGACATATCCTGATTTCTTCCATAGCTTGGATCTTGACCTAGAGGGAAATATAAAAGTGTTGACTTGAACCTGAGGGGTGCCATTTTCACTGCTGAAGTAGTTTCATGGATCATGAATTGGAGAAATGACTTCAGCAACATGGGTGTTAAAATCAGAAAGCACAAGTGACCCACAACAGATGATGGAGAACAAAGAGCAAGCTGGGAAA-GCAGTGGCCTTTAATACAGAAAAGAAGAAGTATAGCCACAATAAATATTAGGCAGACAGCAGTTCAGCAGTTTATACTATTAAGCTGTTGTTTAGGGGAATAGTAAACTGACATGACCCTTGAGGTAGGTATATATAGGTAAATTCTATGTGTCCCTTGAAATAGGTGTATGACACAACTTCTGGCATCTACATGGATTT
+s panTro2.chr1_random 7090211 2818 + 9420409 gagtttaatgaagggtctctttccagggttaagggaactgctagggtttggatatttgaccactccaaactcatgttgaaatgtgatccccattgttggaggtggggcctaatgggaggtgttttggtcctgagtgtggacctctcacgaatgtcttggtgccatccaagtgaattcttgctcgctcttttttttctttttgagatgtagtttcactcttgctgcccaggttggaatgtagtggtgcgatcttggctcactgcaacatccacctcatgggttcaacccattctcctgtgtcagcctccagagtagctaggattacaggtgcccaccactatgcccagctaatttttggtatttttagtagagatggggtttcaccatgttggccaggctggtctcaaactcctgacctcaggtgatccacctgcctcggcctcccaaagtgctgggattacaggcgtgagccaccgtgcctacctagttctagctctcttaattcccacaagagctggttgttaacaagagcctggcacaaacccctctctctctcgccaagtgatctctgcacatgccagcttcccttccccttctgccatgagtggaaacagcctaaagccctcaccagaagcaaatggtggcaccatgcttcttgcacaccttcagaactgtgaaccaaataaacctctcttctttaaaattattcagcctctggtattcctttataacaacacacacacacacacacacacacat----------gcaaaagcagactaaaacaggaactaattagaaatggtgatgcaccgagggattggcaCCGAGGCTCCCCAACAGGAACTGAGGCCATGGATAGAAGGACACATTCATGTTATTTTTTTCTAATGGTTAAGTAATTATTTGctcttactctcaaaatttctgccaaggcctcc
catggaccaaactcaactagaatctaggaagcagagaacctgagtgttgcattcagcagaagtcagcttcctagggaatcttgcaggaagggtgaaggtagagaatctggtggggaagcaagcaaatgcccatcacaTGCACTTTCCTccaacagagcgactcagatgctataaaacttgctaatgcagtctcagggcctgatcacagtaacatacaatccaggttttaatcatcagaaatcacagtcctattgtcttctgcacagacccaaacacacttggaggtcatgttcaatatgaatacctcacagagaaggaaatttacacacgagaagtacatctgcagaaAGCCAGCTGGCATGTCAACCATTCAAAAATTCAGGGTGTTCGGGATAAAGAAGACTCAGGAAGACAAGTATGAAGCATAATCTGTGACATTCCATGCGGCAGACGTTAGACACATACAAGAGAGTTGTTGGAAAGCGGAATTTATCTTCATATAAACAACACTGAGCTAAATCTCAATATTTCAGATCTCTAGAACTATCCATCAGTGAAATGGATTGCAAATAGAAAGAGTAATACCATGTAACTTAAGAATACAATCATGGACAAGGCTGCCACCTGCTGTTGGGGGCCACTGCAGAAGAAATTCCAGAACACTGGACTGGAGAGCACCTCACTTTCCTTACAGCTCTAAGTTTCTGACTCAGTGACCTGATTCAGTACCATATACACAAAGACCCACTTACACAAATGACTGTTCTTCACACTAGGCCCATGGAGACAGGGATAAAATTCTGAATTTGCTCAGATACCTTCTCCGCTACTGACATCTAGGCATTACACAATTCATCTCTTCATATTTAACCTTTGAAGTTTGCTACTTCTCAGAGAGACTAATGAGTAGTGAGCAAATATCCTGAAGCTGAGAATGCTTCTACCTCCTCTCAAAACAACGGAATATTCATCAAAACACAGCAGTTCTG
CACTTAACTTTAGGCCTTTTCTTACACCTTGTTTCTTGGCAGTAACTGTGGCCAGAATAGCTCTTTCCACAGATAAATGACCTTTTGAAAAGATAGGGTCTCTAGATAGAACAGCAAATGCCTCATTCCAGAAGGTCTTCAAGAAGAAAATGTTGTGGTGATAACAAACATAACTGATTATAATCTATTCTGTGAAAAAAGCTTATGAAACAGTAGATGTGTGTATCTAGTACATAAGAGCTGAATGTCAATATATATATATAGATATATACACACACTCAAATAAATAATAGTTATCTCTAACTAGAGAAATTCTAGTTGCCTTATATTTTCTTCTTTTTCCTTACTATATTTTCTACAATAAACATGTGTTTTTAACAAGAAAAGTCTTTTCTGGTGTGCTTTTTAATTTTCTTTGTTTAAGTGAGAGTGAGGCTACATAACTACATGGCTAGGTAGACTTTTAGAAAACTTGGCTGCTCTAGAAAATTGACATATCCTGATTTCTTCCATAGCTTGGATCTTGACCTAGAGGGAAATATAAAAATGTTGACTTGAACCTGAGGGGTGCCATTTTCACTGCTGAAGTAGTTACATGGATCACGAATTGGAGAAATGACTTCAGCAACACGGGTGTTAAAAACGGAAAGCACAAGTGACCCACAACAGATGATGGAGAACAAAGAGCAAGCTGGAAAAAGCAGTGGCCGTTAATACAGAAAAGAAG---TATAGCCACAATAAATATTAGGCAGACAGCAGTTCAGCAGTTTATACTATTAAGCTGTTGTTTAGGGGAATGGTAAACTGACATGACCCTTGAGGTAGGTATATATAGGTAAATTCTATGTGTCCCTTGAAATAGGTGTATGACACAACTTCTGGCGTCTACATGGATTT
+
+a score=207872
+s hg18.chr1 96118 2256 + 247249719 GGTCACTCTAAAGTAGCCATGAGGCTTAAGATAGTTCAGCTGTTTGGGGATAAGTTAAATCATTTGCCATTGTCTTTCTGCAATTTGCATATCCTACAGTTATCATTGCCATTACTGAATGGCACAGAGAAAAATTCTGGTCTAAAGTGGTTCTCAAACCTGGTtgctggagggccaccctcagtgatgatgatttaatctgtagaagaatagaacattgatagtttttatatatctccaggtaattttaatatataactggggtgagaatcattgACATAATTGTAACAGGATAATATTCAGGAAATATGGAGATAAATAATTTTCTTCTCGACATTAAAAAAATCTAATAAAAAGTTTTATGTTTTCCCCTAACTCAGGGTCATCAGCCTTCAAGCTTCAGTCTCTGTGTGTTCACAGGTGCTGTAAACACACGCATCACTACTAATATCCCACTTCAGTGCTATTGCTGCTCCCAAAACTCCAGGTATTTTTAACCTTATAAACCTCCAGAATAATGAGACCACTGGGTTCAGTAAATTGCTTTGTTTTGAAGCACTATTAGACAAAGTGGGAGACTAGAAGATAAATCTGTCAATGACATGTCCTTTAAGACTACTTAGATTTTGTTGAATTTGTGGATCATTCCTTACTTGAGCAAATGGTAAATTAACTCTCTCTTTTCTCTCTCTCTCTAGCTGGCACACTTTTTCCAGTAGCCATTCTACTTGGTATGCTTACTTATCAGCTGTCCTCCAGGGGCCTCACATTAGATGTTTCTC-TGACTAACCAAACATGACACACAGCTGAAGTCAGAAAAACCAGATTGATAATTTCACTCAAACTATTTTCCTTCATTCTAACAATTTACTGGAGTACACAATTGTGACTATTTTTAGCCATAGGAACTCATAGAAAGACCAACTTCATTAGACCTACAAAATCGAAT
TGTGTAACAGTATATGCAGTATGTGTAGGAATAAAAAGCATTTCTCAAATATGCAGTACTGGATTTTGCAAAAGCACCTTACACTTAGCTATAAAGGAGTGGAAAACACAAAGATGAGTAACTGCACTTTTCAAAAGACTAGAGCTATACCAATAATACAAAGGTGTAAACAAATAATGATGAGATGACAAAGGCTGAGTGTTTTCTATTTGGAAGCTATGTTGTTGAGTTATTTATGTATATAATTTCATGCAATCTTCATGTTATGGGGATGTTctaatccactgtgactctgtccttaaataaaagggagatttggacatagagagaggcacacggggaggatgccatatgagaattgacactgtgctgtcacaagccaaggaactactggaaggagagaaagaggactggaacagttccttccttagcaccttttcaggcagcctagccctgccagcttcttgatctggacttctcacctctagaattgtgaggcaataaatctctgttgcttaagttacccagtttgtggtaccttattacaggagccctaggaaaataattcaTTATataatctgctaaggtagatatgatcattgtctccaatttccatatgaagaaactatgcctcaggcattgtgtcagttgtccaaaatcatacattcctgactcacttcaatgaattcttcattcagcaaaatttttaaggtaccttaaaaaaattatgttaactcttagggccttgctttaaagcttcaatgggcttttcctttgcaaagaataaaatcctaatacttaagcatagctctctttcctggctatgtttctgacatcctcttgtaccatgctcctccttaatcattctgaggttacatcttaagtcctttccccttgccattcccacttcttggaatactttcccatcaactcttcaaagaactgccttctttaagtatttggtctcagttccaatgtcacttccctgt
aaaagcttcctggccatcaagccttctttacacactctattttattttttcatggttcctataacaacctaatatattctcaattgattaactgttttgctgaatactgccttccataagaatggaaagaaaacatggccaggtgcagtggctcacacctgtaatcccaccacttcaggaggctgaggcaacatggcaaaaccttctcttcaaaaaattttttaaaagttagctggatgttgtggaggcaagaggatcacttgaggatcacttgagtccatgaggtcaaggctgcagtgagtcatgtttgcaccactg
+s panTro2.chr1 243304 2257 + 229974691 GGTCACTCTAAAGTAGCCATGAGGCTTAAGATAGTTCAGCTGTTTGGGGATAAGTTAAACCATTTGTCGTTGTCTTTCTGCAATTTGCATATCCTACAGTTATCATTGCCATTACTGAATGGCACAGAGAAAAATTCTGGTCTAAAGTGGTTCTCAAACCTGGTtgctggagggccaccctcagtgatgatgatttaatctgtagaagagtagaacattgatagtttttatatatctccaggtaattttaatatataactggggtgagaatcattgACGTAATTGTGAGAGGATAATATTCAAGAAATGTGGAGATAAATAATTTTCTTCTCGACATTAAAAAAATCTAATAAAAAGTTTTATCTTTTCCCCTAACTCAGGGTCATCAGCCTTCAAGCTTCAGTCTCTGTGTGTTCACAGGTGCTGTAAACACACACATCATTACTAATATCCCACTTCAGTGCTATTGCTGCTCCCAAAACTCCAGGTATTTTTAACCTTATAAACCTCCAGAATAATGAGACCACTGGGTTCAGTAAATTGCTTTGTTTTGAAGCAGTATTAGACAAAGTGGGAGACTAGAAGATAAATCTGTCAATGACATGTCCTTTAAGACTACTTAGATTTTGTTGAATTTGTGGATCATTCCTTACTTGAGCAAATGGTAAATTAACTCTCTCTTTTCTCTCTCTCTCTAGCTGGCACACTTTTTCCAGTAGCCATTCTACTTGGTATGCTTACTTATCAGCTGTCCTCCACGGGCCTCACATTAGATGTTTCTCTTGACTAACCAAACATGACACACAGCTGAAGTCAGAAAAACCAGATTGATAATTTCACTCAAACTATTTTCCTTCATTCTAACAATTTACTGGAGTACACAATTGTGACTATTTTTAGCCATAGGAACTCATAGAAAGACCTACTTCATTAGACCTACAAAATCGAAT
TGTGTAACAGTATATGCAGTATGTGTAGGAATAAAAAGCATTTCTCAAATATGCAGTACTGGATTTTGCAAAAGCACCTTACACTTAGCTATAAAGGAGTGGAAAACACAAAGATGAGTAACTGCACCTTTCAAAAGACTAGAGCTATACCAATAATACAAAGATGTAAACAAATAATGATGAGATGACAAAGGCTGAGTGTTTTCTATTTGGAAGTTATGTTGTTGAATTATTTATGTATATAATTTCATGCAATCTTCATGTTATGGgggtgttctaatccactgtgactctgtccttaaataaaagggagatttggacatagagagaggcacacggggaggatgccatatgagaattgacactgtgctgtcacaagccaaggaactactggaaggagagaaagaggactggaacagttccttccttagcaccttttcaggcagcctagccctgccagcttcttgatctggacttctcacctctagaattgtgaggcaataaatctctgttgcttaagttacccagtttgtggtactctattacaggagccctaggaaaataattcaTTATataatctgctaaggtagatatgatcattgtctccaatttccatatgaagaaactatgcctcaggcattgtgtcggttgtccaaaatcatacattcctgactcacttcaatgaattcttcattcagcaaaatttttaaggtaccttaaaaaaattatgttaactcttaggtccttgctttaaagcttcaatgggcttttcctttgcaaagaataaaatcctaatactcaagcatagctctctttcctggctatgtttctgacatcctcttgtaccatgctcctccttaatcattctgaggttacatcttaagtcctttccccttgccattcccacttcttggaatactttcccatcaactcttcaaagaactggcatctttaagtatttggtctcagttcaaatgtcacttccctgt
aaaagcttcctggccatcaagccttctttacacactctattttattttttcatggttcctataacaacctaatatattctcaattgattaactgttttgctgactactgccttccataagaatggaaAGAAAACATggccagatgcagtggctcacacctgtaatcccaccacttcaggaggctgaggcaacatggcaaaaccttctcttcaaaaaattttttaaaagttagctggatgttgtggaggcaagaggatcacttgaggatcacttgagtccatgaggtcaaggctgcagtgagtcatgtttgcaccactg
+
+a score=94883
+s hg18.chr1 98374 1036 + 247249719 cactctagcctaggtgacagagctagtcactatcaaaaaaaaaaaaaaaa---gaatggagagaatgctacatgagagaaaggatcttatctatcatgttcacctcccaagaggtgaacatatcccccaaagcctgatagagagaagatgctcattaatatttaatgcatgaCCATGTGCAGACTTGGGAGGAAAAATATGCCTCAGCCTATCAATATTGGATCCTTAATAAACAAGGATGTTTCTGCATCATTTCCCCACAACACCGAACAAGTGTGGCTCACTGTGGATGTTTAAGCAAATGCATTGTTTTTCCAGTTATATATCTGGTAGAGATGAGGCCATTGATAGGAATGGGAAGACGATCTCCTTTTATTTTGATGACCCAGCATGGCTGAACACTCAGTGACTACCACTGCACTTTGTTGTACTTTCAGCATTAGAGATGCCAGCCCTGTAGGATATAAAACAGGAACATCTAGTCCTCAATTATATTCAGAATTACTCAAGTCTTAGAAGCACCACTTGTCTTTTTTCAAGGGAGAGAAATGCTCAAGTGATGGGCTGAAGTGAAGGGAGGGAGTCACTCACTTGAACGGTTCCCTTAGGCTGTGTGGATGCAAACAGCATTAGACAATGACACTGACAGTGGGAAATGCACTGGAGACGATGACTGGCAAAGCCCTCCTTTTCTCCCCATCCACTATAGATACTGACAGCAAAGGGTTTGTCACAATGACAACTATACACTCCCAATATCACAGAAGAAGGAGGAATAAAAGGGTATATTATGAGTGACTGAAGTTTAGAATAAATTAATAAATATTATGTCCCTCATCCATAGAAACCACAAAGGTCTAGTAAGGCTAAGGATATAACAAGAAAATAATATGAATATTTGCTTCCCCTTCCTAGTGTAATAGAGTAAGTTACAAATGGCTT
CAGGAAGGGGAGAGAGGAAGAAGAGTGGATGAGATACGTAAGAGTGCTTGAGGGCTAATTTTATGAAAGCTTTGGGAAGTTTTAAGAAAAAGAAAAG
+s panTro2.chr1_random 7095288 1039 + 9420409 cactctagcctaggtgacagagctagtccctatcaaaaaaaaaaaaaaaaaaagaatggagagaatgctacatgagagaaaggatcttatttatcatgttcacctcccaagaggtgaacatatcccccaaagcctgatagagagaagatgctcattaatatttaatgcatgaCCATGTGCAGACTTGGGAGGAAAAATATGCCTCAGCCTATCAAAATTGGATCCTTAATAAACAAGGATGCTTCTGTATCATTTCCCCACAACACCGAACAAGTGTGGCTCACTGTGGATGTTTAAGCAAATGCACTGTTTTTCCAGTTATATATCTGGTAGAGATGAGGCCATTGATAGGAATGGGAAGACGATCTCCTTTTATTTTGATGACCCAGCATGGCTGAACACTCAGTGACTACCACTGCACTTTGTTGTACTTTCAGCATTAGAGATGCCAGCCCTGTAGGATATAAAACAGGAACATCTAGTCCTCAATTATATTCAGAATTACTCAAGTCTTAGAAGCACCACCTGTCTTTTTTCAAGGGAGAGAAATGCTCAAGTGATGGGCTGAAGTGAAGGGAGGGAGTCACTCACTTAAACGGTTCCCTTAGGCTGTGTGGATGCAAACAGCATTAGACAATGACGCTGACAGTGGGAAATGCACTGCAGACGATGATTAGCAAAGCCCTCCTTTTCTCCCCATCCACTATAGATACTGACAGCAAAGGGTTTGTCACAATGACAACTATACACTCCCAATATCACAGAAGAAGGAGGAATAAAAGGGTATATTATGAGTGACTGAAGTTTAGAATAAATTAATAAATATCATGTCCCTCATCCATAGAAACCACGAAGGTCTAGTAATGCTAAGGATATAACAAGAAAATAATATGAATATTTGCTTCCCCTTCCTAGTGTAATAGAGTAAGTTACAAATGGCTT
CAGAAAGGGGAGAGAGGAAGAAGAGTGGATGAGATACATAAGAGTGCCTGAGGGCTAATTTTATGAAAGCTTTGGGAAGTTTTAAGAAAAAGAAAAG
+
+a score=182569
+s hg18.chr1 99410 2041 + 247249719 CTATTTTTCAAGGTACAtgtgtgtatgcgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgAAAGACAGAAGAAAGAGGGAGACCTTAGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACACACACTTAGAAAAACACACATAGGGAGGAGGGAGGAGGTTAAGACATTTTACTATGTGCTGTGAATGGAAACTACAAACCATTTTTGATatatgcaatatatatacatatatacacacatatacatatGTATTTAAATATTTAAATTACAttttctctttttttagagatatggtttcactatgtcactctgcccaggctgcagtacagtggttgttcacagtcatgatcatagcacattatagccttgaactcctgggctcaagcaaccctcctgtattagtctccccagtagttgggattactagcatatgccaccatgtccACCTTTATGCTTTTTAAAGTGAAAAACCATACTAAGAATGAGGCAGCTCAACTTAATAATAAAAACATTTCAAATGtaaagaaatttacaaaagaaaaacaatcaaccccattaaaattgggcaaagggaatgaacagacacttttcaaaagaatacatgcatgcagccaacaaacatacaaaaaaaaagttcaacatcactgatcattagagaaatgcaaatcaaaaccataatgagataccatctcacaccagtcagaatagctatcattaaaaagtcaaaaaataacagatgctagtgaggctatggagaaaagggaatgcttatacactgttgttgggtgtgcaaatcagttcaatcattgtgcaaggaa-agtgattcctcaaagagctaaaagcagagctaccattcgacccagtaatcccactactgggtatatacccagatgaatataaaccattctaccataaagacacatgcatacaa
atgttcattgcagcactgttcacaatagcaaaagtatgggatcaacctaaatgcccatcaatgacagattggataaagaaaatgtggtacatatacaccatggaatactatgccgccattaaaaaatgatatcatgtcttttgctggaatatggatggaccttctattatccttagcaaactaatgcaggaacagaaaaccaaatacagcatactctcagttataagtgggagctaaatgatgagaactcatgaacacaaagaataaaacagacactggggtctacttgagggtggagggtgagaaaaggaagagaaacagaaaagataactattgggtactaggtttaatacctgggtgatgaaatgatctgtacaataaccccctgtgacaccagtctacctatgtaacaaatgcccctaaacttaaaataaaagtt-aaaaaaaaaAGAAAATTAAAATCTCCTTATCATCTACCTGGTAATATGAAAAACACATATCTTTCATTCATTCCTTTCAACTGATGAGGAAACTGAGGCATTGGGAGTTAGTAAAAGTCCACATTGAGATATGAGACCCACCACTggctggacacagtggctcacacctgtaatcccagcactttgggaggccgatgctggtggatcacctaaggtcaggagttcgggaccaggctggccaacatggtgaaacccccatctctactaaaaatacaaaaattagctgggtgtggtggcaggcacctgtaataccagctactagggaggctgaggcaggagaatcgcttgaacccaggaggtggagtttacagtgagccaaaatcatgccattgcactccagcctgggcaacaagagcaagactctgtcggggaaaaaaaaaaacaaaaaaaaCCACCACCATCATTTTGCAAGTGTTACCACTATTGTGTGTTAATATTGTAGAAGTATTCCTAATTATGATTTCTTTGTATTCCTAATTGTAATAGCTT
TGTATTTGAAAAATTATTGATTCATACTC--TATGTTATTATTTTGTATGCGATGACAACAGAATATATTATCATGCTCCTTTTGTGAATCTCATTCATAATATAA
+s panTro2.chr1 246632 2037 + 229974691 CTATTTTTCAAGGTACAtgtgtgtacgcgtgtgtgtgtgcgtgtgtgtgtgtgtgtgtgtgtg----AAAGACAGAAGAAAGAGGGAGACCTAGGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACGCACACTTAGAAAAACACACATAGGGAGGAGGGAGGAGGTTAAGACATTTTACTATGTGCTGTGAATGGAAACTACAAACCATTTTTGATatatgcaatatatatacatatatacacacatatacatatGTATTTAAAGATTTAAATTACAttttctctttttttagagatgtggtttcactatgtcactctgcccaggctgcagtacagtggttgttcacagtcatgatcatagcacattatagtcttgaactcctgggctcaagcaatcctcctgtattggtctccccagtagttgggattactagcatatgccaccatgtccACCCTTATGCTTTTTAAAGTGAAAAACCATACTAAGAATGAGGCAGCTCAACTTAGTAATAAAAACATTTCgaatgtaaagaaatttacaaaagaaaaacaatcaaccccattaaaattgggcaaagggaatgaacagacagttttcaaaagaatacatgcatgcagccaacaaacatac-aaaaaaaagttcaacatcactgatcattagagaaatgcaaatcaaaaccataatgagataccatctcacaccagtcagaatagctatcattaaaaagtcaaaaaataacagacgctagtgagtctatggagaaaagggaatgcttatacactgttggtgggtgtgcaaatcagttcaatcattgtgcaaagaatagtgattcctcaaagagctaaaagcagagctaccattagacccagtaatcccactactgggtatatacccagatgaatataaaccattctaccataaagacacatgcatacaa
atgttcattgcagcactgttcacaatagcaaaagtataggatcaacctaaatgcccatcaatgacagattggataaagaaaatgtggtacatatacaccatggaatactatgccgccattaaaaaatgatatcatgtcttttgctggaatatggatggaccttctattatccttagcaaactaatgcaggaacagaaaaccaactacagcatactctcagttataagtgggagctaaatgatgagaactaatgaacacaaagaataaaacagacactgggttctacttgagggtggagggtgagaaaaggaagagaagcagaaaagataactattgggtacaaggtttaatacctggttgatgaaataatctgtacaataaccccctgtgacaccagtttacctatgtaacaaatgcccctaaacttaaaataaaagttaaaaaaaaaAAGAAAATTAAAATCTCCTTATCATCTACCTGGTAATATGAAAAAAACATATCTTTCATTCATTCCTTTCAACTGATGAGGAAACTGAAGCATCGGGAGTTAGTAAAAGTCCACACTGAGATATGAGACCCACCACTggctggacgcagtggctcacccctgtaatcccagcactttgggaggccgatgctggtggatcacctaaggtcaggagttcgggaccaggctggccaacatggtgaaacccccatctcttctaaaaatacaaaaattagctgggtgtggtggcaggcacctgtaataccagctactagggaggctgaggcaggagaatcgcttgaacccaggaggtggagtttacagtgagcgaaaatcacgccattgcactccagcctgggcaacaagagcaagactctgtcgggaaaagaaaaa---aaaaaaaaaCACCACCATCATTTTGCAAGTGTTACCACTATTGTGTGTTAATATTGTAGAAGTATTCCTAATTATGATTTCTTTGTATTCCTAATTGTAATAGCTT
TGTATTTGAAAAATTATTGATTCATACTCTATATGTTATTATTTTATATGCGATGACAACAGAATATATTATCATGCTCCTTTTGTGAATCTCATTCATAATATAA
+
+a score=51978
+s hg18.chr1 101451 561 + 247249719 AGTATAAATTTGTGATTTTGCTTTAATTTGAAATATTAATTTCAAATATGTTATCACAATTTGATACAAACTATTGACAGTAAATCTGTGGATTAAGTAATGTCTTAGTAGGTATTGGGAAAATTTGAAACTAGTAACATGGAGGACTATTGTCATTGTTTATTTCAAAGCCAGTTAAAATTCTGCAAAGCAGTGTACATAAAAATAATTTCAAGAAATTTATAAAATACCGAGATTACGGTGTATAAACAACTTTAGATTCTTTGTTTAAGAAATTCTGCCAGTTTGTAATATATGCTTCATTCAAAGTAGCTAAGGGCTGTACCTGGCTAATAGTAGGCACCTAATATTTGTTGAAAAGGAATACTGAGTAGCTGGGACCTCCTGAGTAGCTGGGACCACACACATTTAACCTGTATTTATAAAATTACTGTTTAGAGAATAACATTTGATGGAATCATGCTTTTACTTTCTGCTTACGACTCAATTGTTTGTactgacattaacatcccaaatccttagcatggcctacaaggccctgagcaatgtggcacctgctga
+s panTro2.chr1_random 7109461 561 + 9420409 AGTATAAATTTGTGATTTTGCTTTAATTTGAAATATTAATTTCAAATATGTTATCACAATTTGATACAAACTATTGACAGTAAATCTGTGGATTAAGTAATGTCTTAGTAGGTATTGGGAAAATTTGAAACTAGTAACATGGAGGACTATTGTCATTGTTTATTTCAAAGCCAGTTAAAATTCTGCAAAGCAGTGTAAATAAAAATAATTTCAAGAAATTTATAAAATACCGAGATTATGGTGTATAAACAACTTTAGATTCTTTGTTTAAGAAATTCTGCCAGTTTGTAATATAtgcttcattcaaagtagctaagggctgtacctggctaatagtaggcacctaatatttgttgaaaaggaatACTGAGTAGCTGGGACCTCCTGAATAGCTGGGACCACACACATTTAACCTGTATTTATAAAATTGCTGTTTAGAGAATAACATTTGATGGAatcatgcttttactttctgcttatgactcaattgtttgtactgacattaacatcccaaatccttagcatggcctacaaggccctgagcaatgtggcacctgctga
+
+a score=669341
+s hg18.chr1 102012 7363 + 247249719 agcctgctgcctcatttaataactctttgtctctttcccagatccagccactctaacattttttagctcctggaccaagacaagctcttcccagaacctgacctttgtacctgttctttattcctggagtatttttcccctgacaaattacttatcatctatcataattcaggttaaatggcactaactcagggaaggcttccctaactgcctcccttctccaaccaaattaggaacaattatatggccacatagtatcgaatcaagtttataattttaaaataattgggagattttgttgtttaacacttgttttcactataagactgtaattacatgcaagtaagaaccatgcctgtttgttcactcctgccacagtcagaatagtgcctggaatatgcagtaagggctgaacaaacactaaataaatgaaCAAGTGAATAAATGGATATTGTCTCATTTTTAGAACAGAGTACTAAATGGATCATGAACACTATCTGGTATGTCACGTAGGTAATTTACAAGGGCTACAATTTCAGCTCAGATTTACCTTTTCCTGGATACAGGTCTTGATAGGTCTCTTGATGTCATTTCACTTCAGATTCTTCTTTAGAAAACTTGGACAATAGCATTTGCTGTCTTGTCCAAATTGTTACTAAGAATCAAGAGAGATATCTGACATGAAATGACATTGGAAAACATTAAACACGATTGAAATAATGCTAGCCAATATGGTTATTATTAGAAACCAATTACATTTTCAACTTAAAAATAGTAATACTTATTGCAGACTCAAATGTGCTTATTCTAAAACAAGTAAATGTTTGCCTATGGTCTGAGATTCTAATCCACGGAGTTCATTCTAATCCACATTCAACACTATCATGTACCAGTGGGCCTCATAACCCACCTAGCCCTGTGATTTTTCAGGTTCACTTTTCTAAACTTGT
GAATTAAATATTTATTTTCTTAGTTCAGAAGAGGAAAAAAACTCTTGTAATTGTTGCCCATTTCAGGAGAAATCTTGCATATGAAAACAAGAGATAAATATACACAACTGAGGGCTGTGGTTTAAACAAAATCTTGAGAATGTTTTTTGACCTTATACATTTGTGCTTTAGTATAACAAAATGATATAGACAAAGGTAACTTTTAATAGAACCAGTCACTACATTAAAAAAA-TGACAAATTCTTCTGCTTAGCTAAGCAACAGAGAAGGTAAAATACTAATTCAATTCATCAATTTAAGCAATACTCATTAAGAGCCAAGTATGTGCTCACTGAATAAGCTGCTAAGGTTTGGTGGTTACAGAGTGTGCGGTGAAATGATGTCTACATCACAGTCCAACATTCACAGAGTTTAAAAGCCTACCAAGAATCAAGACAGACACAAATACCTAACATAGACGTTTGTATATGATAAGAGAGCCAGAGTACAATTTAGGAGAAGAAATTGTATGGAAGGAAGGTTCATTTCCATTAGACCAGAAAAGACAGCACATTTGAAGGCCTGAATAAGAAATATTCTGGATAAGATATTGTggctgctaccagaatggctcttgatgatctctacctcttggtatttatacccttatataatctctttcctatagtgtaagctggtcccaggtacttgtttctattgaatagaatagaacaaaagaaatgagatgccacttctgagattagtttataagatactgtgaatttcatcttgtgccctctccctctctctctttctcttgccctctcatttgaatgaagccaactggcatgctgtcagtggcacagtgtaagtcctgttacaagaaattgacgattacctgtagccaaccctaagtgaagaactgaggtcctcagtcctacaaatggagagaaactgaatctagctaagaaccatgtgagtgagctgggaagaagatccaccctcagttg
aaatttaagatgaCATATTGAGCAGACATACTGAGACACACTGAAAGTAAGAGAGCAGGAGGAAACAAAACCAGGGTCATACAAAGAACACAACTGATTTTGAGATTCTCACATaagtattacaccttcagtgagcacgtgtactagaaatttaaaaaataaataaaataaaccttcaaagtgagctagcaaataaatttccctatggtctcagctctgagtggagagagaaaatgttccctgtggagtttatagccagaatccagctctcaaacaggtttcagcctgaactcacacaatctgtgtggcttccaaatttgcaagctgagaatttaattcaaagtggtctcaggttgatagcagtccaaaatgctaggtaggaaaaaaaatcctctctggacaaataaatcatcaaagcaagctcataagagcaggtttcaaaggtcatgagcttctaacacacacacacaaaaatcacacacacaaaatgggggtagcagcaacatgggtagcgtattcaaacttgaaaagactttaaatatttgtattattagatgtagattatgaaacacatattttAATGTGGTTAATTTTTTTAAGGAATCACAACTATGAGTAAAGACCAAGAAAATTGTGCTGGATGGCCACTTCCACCATGGCTCCCCTCCTATTTAAGTCTGGGTACTGTGTCACCCGAAGTCTTCAGGCACATTGTTCCAGGTCTGGGTTTGCCTATGAAAGAAACTCATGAGAGCTGGAAATGAGGAGTGAAGAGGAGGTCTTCACATAAAGCAGGCTTAAGGATTAGACATAGCAGGTTTGACAGATGTGATGGCTTGCAGAATCCTTTATGAGCTCCCACTGTCCATCTGGATAAGATTTACAGACCTTTCAGAAATTCCTATAAGCTTGGGTTCTGTGCCCACACTCTAGACTGTCAGGCTAAGATCTCTGATATAAAACAGACCTCTTCTGATTTTGTCTAGCTG
CTTTTCTAATATCTATTCACCAAGCTCTTCCAATAATAGCATAAGGCCCTAATTAATATTAAACTTTTATCATTATAATACATAGGATGTCTTCTGTTTTCCTGATCAAATTCTGACTACTATTAAAATATAAAGAATTGTCCAGAAATATATAAAAAAAGAATCACACATTGATCTTCTTTAAATGAAAATATAACAATTGTATGGACTAGGATGATTACAGTTGTTCAGTTCTGACTGTTATTTGAAGAAAAAAGCAATAAGAAgcctcagcaacttaacagaaggagctgccatttactaggagaaaagattgtggatgagagtgtagcaaaggtcagaattctgtgaagcttgagatgtttattaTAATGAATTATCTTTTATACTCACTACAATTTCCTAACAATTTTGGGGTTTATATTTTTGAAAGAGATATACCTTTAATTTTCTTTCTTTGTACTATTGTTAGGTAACTTTAATGTGCAGATTATACTACAgtgaaagttgccaatgacaaggcaaagtcacttacatcagacccaaagcaaagtggagccgggtcatgaaaaaggggatcttgtgtgtctgtccacgataagcactatcacaaggactttctataaactcacaagaaaTTTCTGCCCACCCAGCACACA--GTTTGTCCAGCTCATCCTGTAGGTGTCTCTATAATAGGACCTATCATAAAAAAttcctcaagactgcagcatttcagataagccaccctcacaagaacacttgcctagcaatggctgtttctgccagtaagttaacaccagctcctgcatcagaccctgtgaccaatgatgtttgtttcaaaacagcttgcatggacttctttttgtctttacatattttccttacctcaacctcttgggatgcacctatgattgatcatagcacaaatatctcagattataatccttgtttatttccaaataaatttatttctttggagatccactt
tttctgTTATTATACATTGACATTGTTAttatgaaattggttgggtgatgtgtcttattttcttgtctccagaagaatttctgtaacagtgcaattaaacgttctttgcatgtttgctagaactcacctgtaaaattgtctgagcAACCAAAGCCTGGTTTTTGTGTTTAGTTTTTCTTTTGTGATTGGGGAGGGGGGTTTATCGTACTGATTCAAGGTGTGAAGGTAACATCATTTTGATTTTATACATCTTCTTCAGTCCATTTAAGCATGTTACATAGCGTTGTTTGTTCTTTTCATGATATTCTTtacagtagtctcctaaatgttccctctgattctg-----------------------------ccatgagcccctacaatctatttcaactcagaagctatagagtttgtttaaaacatgtaacatattatgccacctttcttactgtaaaacatcccatggtttctcatagtatttatagtaaaagtgaaatttttatgatggcctgagaaacttttcccattagatgcccaagtgctggtctggtctgatcttctcatcttcccttgggtgattctgtggcagtcacactagcctccttgctgctccacaaaaactccagcatgatcctacttcaggatatttgccattgttactgcatctgcctggaaccttttctcccatataaacatagagattgctcttgcctgtccttcaagtctattcttaaatgtcccattctctgtgaagctttcctgcccaccctatttaaattacagacttcactcccaattccccatctactttaagagtcttcatttatcattccttgacaaactgtaaatatacatgttcacttttttatcgtctgtctccaaatactggaatgttaagttctgtaatgtcagatatttctgtttggttcactggtgtattcttaaagcatgttacatactaggtatactcaatgaatatttgtt
gaataaatatcacattgggcttattccagaaattcaagcttgtttcaatagttagagcaatctacaaatgtaattcattacattaactaattaaaggagctaaatcacatcaccaccacaataatgcagaaaaccacatttgatacaactcaatattcatgtctgcctaacaaacatctcatgatactaggaaaagaggaagggatatattattttcatgtataaagcactaaccattgtagcatgccaatatactcaaaattcaatgaaattcctatcaaaatcttagcattcctcttagtcctcaacaaagcatttctaaaatgtgtatagaagaccaaagggccaaaagagtcaacttctgaagaagcgcaaaaagaaagttgaggaaatcttaaaacatgttattgagcttaaagttgcaaaaataaactcatgtaccataattcatgagtagaaaaatagactagtggaataacataaaaataaaaacaatgcttacataaaatgttgtaactgatttggatgtcattagaaatcagtaagtaaatagatggacaatgtaatgaaagatgctaggcaaatAAtgtggtagggagaataatggccctcaaagatgcccatgcctaaccctggaacctgtgaatatgttacactgaatgcaataaaggcttatcagatgtgattaaggatgcaaaccgagatggagagatcttcctgggttacccagatgggcccagtctaatcacatgagttcttaaaaatggagaacctttcttagctgagtccagagagagatgtgacaatgaaagaatggtcagagaaatgtgacattgccagctttaaaaagagagaggagaggcaatgagaaaaggaatgctgatgttctctagaagatagaaaaggccaggatatggattctaccctagccaccataaagaaacatgcctgtcgacaacttgattttagttcactaaaattcatgcctg
atttctgacttgtgtacactgtaagatgacaagtttgtgttattttaggtcacttagtttgtagaaatttgttacagcagtaatagaacaagtggttatccatatgaggcaaattagattggatacctatctccaatagaaatcaattcaaggtgaattccaggaaaatacttaaaacatttagattaaaaataaatgagaatttttgttacttttggtaggtcatagaaccaagaaaaacaaacattaaggaggaaaaatgaacatatgactacatcaaaatataaagcttctctatttggaagatatcataaggtgacaaatcataaactgtaatatttacaacatatatataagtgaataaatatacatttagaatatatatgaactcccaaaaatcaacaggaaaaataagacatagaacaagcaaaatgcataaacaaaagaaggcaaaacaaaaataatgactcataattatatgaaaagaagctcatcttcatagatgagcagataaatgcaaattaaaaccaccctgagatgctttttacatccatgagcctgataaaagttagagtctaaaagtaataa----caaagatgggaagtaatagaaaatcttgtccattactggttaaagtataaactgatacagctactttatagaatattacattatagaataaagttgtgagtatgtatatgcagtgactcagcatattcattgctagtatgtactcaagagaaacttacaggagtggactaggaagtaaatacaaaatgattacaacattgtttgttatatcaaaaaataaaaaagacacccaattttccagcaaaaaaaataagtaaaaataaatcctggtgtattctaacaatggaataatatatagccattaaaataaatcaactattactgtacatatgaatgtaaatatcagcaaaacatattgtttagtgaaaaactaagaagctgaagaagaatatataca
atatggttacatttatatgaagtccaaaaacttgcaaaataaagaaatgtatttagaaatagattcacatgtgagaaaactagaagaaaattaatgaaaggataagagggatagcagtaattctgagtagttgagggaaTTTCAATTGGAAAAAAATAATATCATATTCTTTAAGTCAGGTAGTGGGTATTAGCATTTGTTTTACCATCGTTCTTTATTCTTATAGCTACACTATATATTTTCAATGTATTTAATGTATTTTTTGCATAATTAAATATTATGCAATAAAAATGAGAAAACAAAAAAGTAGAAAATGATAAATTACAATAAAGAAATGGAGAAAAAATTATAATCTAGTTGAGTAATGGTATATTACATAGCTATTTTCTTAAGTAGATGTATGTACATGATGTATGCACGATTGTACATACATGTTCttaattatatataaatatatatgtacatatttttaatataaaataCTAAACAAAGTACACCAAAATATTAGCTCCTAT
+s panTro2.chr1 248901 7392 + 229974691 AGCCTGctgcctcatttaataactctttgtctctttcccagatccagccactctaacattttttagttcctggaccaagacaagctcttcccagaacctgacctttgtacctgttctttattcctggagtatttttcccctgacaaatgacttatcatctatcataaatcaggttaaatggcactaactcagggaaggcttccctaactgcctcccttctctaaccaaattaggaacaattatatggccacatagtatcgaatcaagtttataattttaaaataattgggagattttgttgtttaacacttgttttcactataagactgtaattacatgcaagtaagaaccatgcctgtttgtttactcctgacacagtcagaatagtgcctggaatatgcagtaagggctgaacaaacactaaataaataaaCAAGTGAATAAATGGATATTGTCTCGTTTTTAGAACAGAGTACTAAATGGATCATGAACACTATCTGGTATGTCACGTAGGTAATTTACAAGGGCTACAATTTCAGCTCAGATTTACCTTTTCCTGGATACAGGTcttgataggtctcttgatgtcatttcacttcagattcttctttagaaaacttggacaatagcatttgctgtcttgtccaaattgttactaagaatcaaaagagatatctgacatgaaatgacattggaaaacattaaacacgactgaaataatgctagccaatatggttatTATTAGAAACCAATTACATTTTCAACTTAAAAATAGTAATACTTATTGCAGACTCAAATGTGCTCATTCTAAAACAAGTAAATGTTTGCATATGGTCTGAGATTCTAATCCACGGCGTTCATTCTAATCCACATTCAACACTATCATGTACCAGTGGGCCTCATAACCCACCTAGCCCTGTGATTTTTCAGGTTCACTTTTCTAAACTTGT
GAATTAAATATTTATTTTCTTAGTTCAGAAGAGGAAAAAAACTCTTGTAATTGTTGCCCATTTCAGGAGAAATCTTGCATATGAAAACAAGAGATAAATATACACAACTGAGGGCTGTGGTTTAAACAAAATCTTGAGAATGTTTTTTGACCTTATACATTTGTGCTTTAGTATAACAAAATGATATAGACAAAGGTAACTTTTAATAGAACCAGTCACTAAATTAAAAAAAATGACAAATTCTTCTGCTTAGCTAAGCAACAGAGAAGGTAAAATACTAATTCAATTCATCAATTTAAGCAATACTCATTAAGAGCCAAGTATGTGCTTACTGAATAAGCTGCTAAGGTTTGGTGGTTACAGAGTGTGCAGTGAAATGATGTCTACATCACAGTCCAACATTCACAGAGTTTAAAAGCCTACCAAGAATCAAGACAGACACAAATACCTAACATAGACGTTTGTATGTGATAAGAGAGCCAGAGTACAATTTAGGAGAAGAAATTGTATGGAAGGAAGGTTCATTTCCATTAGACCAGAAAAGACAGCACATTTGAAGGCCTGAATAAGAAATATTCTGGATAAGATATTGTGACTGCCAccagaatggctcttgatgatctctacctcttggtatttatacccttatataatctctttcctatagtataagctggtcccaggtacttgtttctattgaatagaatagaacaaaagtaatgagatgccacttctgagattagattataagatactgtgaatttcatcttgtgccctctccctctctctctttctcttgccctctcatttgaatgaagccaactggcatgctgtcagtggcccagtgtaagtcctgttacaagaaattgatgattacctgtagccaaccctaagtgaagaactgaggtcctcagtcctacaaatggagagaaactgaatctagctaagaaccatgtgagtgagctgggaagaagatccaccctcagttg
aaatttaagatgGCATATTGAGCAGACATACTGAGACACACTGAAAGTAAGAGAGCAGGaggaaacaaaaccagggtcatacaaagaacagaactgattttgagattctcacataagtattacaccttcagtgagcacgtgtactagaaattaaaaaaataaattaaataaacctacaaagagagctagcaaataaatttccctatggtctcagatctgagtggagagagaaaatgttccctgtggagtttacagccagaatccagctctcaaacaggtttcagcctgaactcacacaatctgtgcggcttccaaatttgaaagctgagaatttaattcaaaatggtctcaggttgatagcagtccaaaatgctaggtaggaaaaaaaatcctctctggacaaataaatcatcaaagtaagctcataagagcaggtttcaaaggtcatgagcttctaacacacac-caaaaaaatcgcacacacaaaatgggggtagcagcaacatgggtagcatattcaaacttgaaaagactttaaatatttgtattattagatgtagattatgaaacacatattttaaTGTGGTTAATTTTTTTAAGGAATCAAAACTATGAGTAAAGACCAAGAAAATTGTGCTGGATGGCCACTTCCACCATGGCTCCCCTCCTATTTAAGTCTGGGTACTGTGTCACCCGGAGTCTTCAGGCACATTGTTCCAGGTTTGGGTTTGCCTATGAAAGAAACTCATGAGAGCTGGAAGTGAGGAGTGAAGAGGAGGTCTTCACATAAAGCAGGCTTAAGGATTAGACATAGCAGGTTTGACAGATGTGATGGCTTGCAGAATTCTTTATGAGCTCCCACTGTCCATCTGGATAAGATTTACAGACCTTTCAGAAATTCCTATAAGCTTGGGTTCTGTGCCCACACTCTAGACTGTCAGGCTAAGATCTCTGATATAAAACAgacctcttctgattttgtctagctg
cttttctaatatctattcaccaagctcttccaataacagcatgaggccctaattaatattaaacttttatcattataatacttaggatgtcttctgttttcctgatcaaattctgactACTATTAAAATATAAAGAATTGTCCAGAAATATATTTTAAAA--ATCACACATTGATCTTCTTTAAATGAAAATATAACAATTGTATGGACTAGGATGATTACAGTTGTCCAGTTCTGACTGTTATTTGAAGAAAAAAGCAATAAGAAgcctcagcaacttaacagaaggagctgccatttactaggagaaaacattgtgggtgagagtgtagcaaaggtcagaattctgtgaagcttgagatgtctattaTAATGAATTATCTTTTATACTCATTACAATTTCCTAACAATTTTGGGGTTTATATTTTTGAAAGAGATATACCTTTAATTTTCTTTCTTTGTACTATTGTTAGGTAACTTTAATGTGCAGATTATACTACAgtgaaagttgccaatgacaaggcaaagtcacttacatcagacccaaagcaaagtggagccgggtcatgaaaaaggggatcttgtgtgtgtgtccacgataagcactatcacaaggactttctataaactcacaagaaaTTTCTGCCCACCCAGCACACTCTGTTTGTCCAGCTCATCCTGTAGGTGTCTCTATAATAGGACCTATCATAAAAAAttcctcaagactgcagcatttcagataagccaccctcacaagaacacttgcctagcaatggctgtttctgccagtaagttaacaccagctcctgcatcaggccctgtgaccaatgatgtttgtttcaaaacagcttgcatagacttctttttgtctttaaatattttccttacctcaacctcttgggatgcatctatgattgatcatagcacaaatatctcagattatagtccttgtttatttccaaataaatttatttctttggagatccactt
tttctgTTATTATACATTGACATTGTTAtcatgaaattggttgggtgatgtgtcttattttcttgtctccagaagaatttctgtaacagtgcaattaaacgttctttgcatgtttgctagaactcacctgtaaaattgtcagagcAACCAAAGCCTGGTTTTTGTGTTTAGTTTTTCTTTTGTGATTGGGGAGGGGGGTTTATCGTACGGATTCAAGGTGTGAAGGTAACATCATTTTGATTTTATACATCTTCTTCAGTCCATTTAAGGATGTTACATAGCGTTGTTTGTTCTTTTCATGATATTCTTTACAGTAGTCTCCTAAATGTTCCCTCTGCTTCTGTTgtctcctaaatgttccctctgcttctgccatgagcccctacaatctatttcaactcagaagctatagagtttgtttaaaacatgtagcatattatgacacctttcttactgtaaaacatcccatggtttcttgtagtatttatagtaaaagtgaaatttttatgatggcttgagaaacttttcccattagatgcccaagtgctggtctggtctgatcttctcatcttcccttgggtgattctgtggcagtcacactagcctccttgctgctccacaaaaactccagcgtgatcctacttcaggatatttgccattgttactgcatctgcctggaaccttttctcccatataaacatagagattgctcttgcctgtccttcaagtctattcttcaatgtcccattctctgtgaagctttcctgcccaccctatttaaattacagacttcactcccaattccccatctactttaagagtcttcatttatcattccttgacaaattgtaaatatacatgttcacttttttatcatctgtctccaaatactggaatgttaagttctgtaatgtcagatatttctgtttggttcactggtgtattcttaaagcatgttatatactaggtatactcaatgaatatttgtt
gaataaatatcacattgggcttattccagaaattcaagcttgtttcaatagttagagcaatctacaaatgtaattcattacattaacaaattaaaggagctaaatcacatcaccaccacaataatgcagaaaaacacatttgatacaactcaatattcatgtctgcctaacaaacatctcatgatactaggaaaagaggaagggatatattattttcatgtataaaacactaaccattgtagcatgccaatatactcaaaattcaatgaaattcctaccaacatcttagcattcctcttagtcctcaacgaagcatttctaaaatgtgtatagaagaccaaagggccaaaagagtcaacgtctgaagaagtggaaaaagaaagttgaggaaatcttaaaacatgttattgagcttaaatttgcaaaaataaactcatgtaccataattcatgagtagaaaaatagactagtggaataacataaaaataaaaacaatgcttacataaaatgttgtaactgatttggatgtcattagaaatcagtaagtaaatagatggacaatataatgaaagatgctaggcaaatAAtgtggtagggagaataatggccctcaaagatgcccatgcctaaccctggaacctgtgaatatgttacactgaatgcaataaaggcttatcagatgtgattaaggatgcaaaccaagatggagagatcttcctgggttatccagatgggcccagtctaatcacatgagttcttaaaaatggagaacctttcttagctgagtccagagagagatgtgacaatgaaagaatggtcagagaaatgtgacattgccggctttaaaaagagagaggagaggcaatgagaaaaggaatgctgatgttctctagaagatagaaaaggccaggatatggattctaccctagccgccataaagaaacatgcctgtcgacaacttgattttagttcactaaaattcatgcctg
atttctgacttgtgtacactgtaagatgacaagtttgtgtgattttaggtcacttagtttgtagaaatttgttacagcagtaatagaacaagtggttatccatatgaggcaaattagattggatagctatctccaatagaaatcaattcaaggtgaattccaggaaaatacttaaaacatttagattaaaaataaatgagaatttttgttacttttggtaggtcatagaaccaagaaaaacaaacattaaggaggaaaaatgaacatatgagtacatcaaaatataaagcttctctatttgaatgatatcataaggtgacaaatcataaactgtaatatttgcaacatatatatgagtgaataaatatacatttagaatatatatgaacttccaaaaatcaacaggaaaaataagacatagaacaagcaaaatgcataaacaaaagaaggcaaaacaaaaataatgactcataattatatgaaaagaagctcatcttcatagatgagcagataaatgcaaattaaaaccaccctgagatgctttttacatccgtgagcctgataaaagttagagtctaaaagtaataattaacaaagatggcaagtaacagaaaatcttgtccattactggttaaagtataaactgatacagctactttatagaatattacattatagaataaagttgtgagtatgtatatgcagtgactcagcatcttcattgctagtatgtactcaagagaaacttacaggagtggactaggaagtaaatacaaaatgatgacaacattgtttgttatatcaaaaaataaaaaagacacccaattttccagcaaaaaaaataagtaaaaataaatcctggtgtattctaacaatggaataatatatagccattaaaataaatcaactattactgtacatatgaatgtaagtatcagcaaaacatattgtttagtgaaaaa----gaagctgaagaagaatatataca
atatggttacatttatatgaagtccaaaaacttgcaaaataaagaaatgtatttagaaatagattcacatgtgagaaaactagaagaaaattaatgaaaggataaaagggatagcagtaattctgagtagttgaggggaTTTCAATTGGAAAAAAATAGTATCATATTCTTTAAGTCAGGTAGTGGGTATTAGCATTTGTTTTACCATCATTCTTTATTCTTATAGCTACACTATATATTTTCAATGTATTTAATGTATTTTTTGCATAATTAAATATTATGCAATAAAAATGAGGAAACAAAAAAGTAGAAAATGATAAATTACAATTAAAAAATGGAGAAAAAATTATAATATAGTTGAGTAATGGTATATTACATAGCTATTTTCTTAAGTAGACGTATGTACATGATGTATGCACGATTGTACATACATGTTCttaattatatataaatatatgtgtacatatttttaatataaaataCTAAACAAAGTACACCAAAATATTAGCTCCTAT
+
+a score=132031
+s hg18.chr1 109375 1459 + 247249719 GTTAGTGAGATAATGTTTTGTTTTTTTGTATTTTAAGTTTTACATAGTAGGtgtatttttctgttttcatactgctataaagaactgcccaagactgggtaatttataaaggaaagaagtttaattggctcaccgttcagcacagcttgggaggcctcaggaaatctacaatcatggcggaagacaaagaggaagcaagccagcttcttcgcaaggcagcatgaagaagtgccgagcaaaggggaaagaatcccttataaaaccatcaaatctcgtgagaactcactatcacaagaacagcacaggggaaactgcccccatgattcaattacctccacctggtctctcccttgacctgtggggattatggggactatggggattacaattcaagatgagattcaggtggggatacaaagcctaaccatatcaGTAGGCATGTATTGAATTTTAAACTCAGAGAAAAATACTAGTGTTTTT-ATAGGATTCTTACTAAAGAAAAACCAGAAAGTAATAAACCATCTACGCTAAGACATAAAATTCAGTTGTTTAGTTACAAGATAGAATGTGGCCTTGTAAGAAAGCAAATTAACTTCTAACATACAAAGCCTTAGAGAAGATTCAAGTGACTGACGGATCTTAAACAGAGCTATTATTACAACTCGAACTGCAGTAAAATATCCTCAGCAACATAGATGTGTGTGTTTCACTAGTCAGAGCAATACAAATTTAATGAAACTCCACTGGTGGTGTTTTTAATCAGACAATTTCTGAAGATGTCCTGGCTTATTCACAGATGCAAGCCAAATCTCTAGAAGAGTACCATAATAAGAAAAAAAAGAATACAGGCAATTGAGAGCTGTTCCAAAGTTTAGGGAGTTTTTGTAAGGAATTAATAAATAAAAATGTTCTTGAAAGACAGAAATTAATATGCAGTTCATACTGTCAG
AATTGCAGGCAATTTATCAAAGTCCCCTAATCCTCCAAAATCGCTATTTTTTTTTTGACACACACTTTACAGTACAGAAGAAAATGTCTCCGGCAATAAATCACAAAGTTAAAATTACCTAGTCTACAATTAACTACACAGTGATGGTAAATCATTTTCTACCAAAAGAAAGAAATGTCTTGTCTATTCAGGTTCTGCTCTACTTAAAAGTTTTCCTTGTTGGCGAGCAAGTGGTTAGAAAATTATATTTTATACGTACATTCAGCTTAACTATCATTCAGCTCAGGAAGATGACTCAGGGCCTTATCCATACCTTCAAGTTTGCTCTTAGCAAGTAATTGTTTCAGTATCTATATCAAAAATGGCTTAAGCCTGCAACATGTTTCTGAATGATTAACAAGGTGATAGTCAGTTCTTCATTGAATCCTGGATGCTTTATTTTTCTTAATAAGAGGAATTCATATGGATCAGCTAGAAAAAAATTAAGAGGAAAATCACATGGAAAGttat
+s panTro2.chr1 258082 1456 + 229974691 GTTAGTGAGATAATGTTT-GTTTTTTTGTATTT-AAGTTTTACATAGTAGGtgtatttgtctgttttcatactgctataaagaactgcccaagactgggtaatttataaaggaaagaagtttaattggctcacagttcagcacagcttggaaggcctcaggaaatctacaatcatggcggaagacaaagaggaagcaagccagcttcttcgcaaggcagcatgaagaagtgccgagcaaaggggaaagaatcccttataaaaccatcaaatctcgtgagaactcactatcacaagaacagcacaggggaaactgcccccatgattcaattacctccacctggtctctcccttgacctgtggggattatgggggctatggggattacaattcaagatgagattcaggtggggatacaaagcctaaccatatcaGTAGGCATGTGTTGAATTTTAAACTCAGAGAAAAATACTAGTGTTTTTTATAGGATTCTTACTAAAGAAAAACCAGAAACTAATAAACCATCTACGCTAAGACATAAAATTCAGTTGTTTAGTTACAAGATAGAATGTGGCCTTGTAAGAAAGCAAATTAACTTCTAACATACAAAGCCTTAGAGAAGAATCAAGTGACTGACGGATCTTAAACAGAGCTATTATTACAACTCAAACTGCAGTAAAATATCCTCAGCAACATAGATGTGTGTGTTTCACTAGTCAGAGCAATACAAATTTAATGAAACTCCATTGGTGGTGTTTTTAATCAGACAATTTCTGAAGATGTCCTGGCTTATTCATAGATGCAAGCCAAATCTCTAGAAGAGTACCATAATAAGAAAAAAAAGAATACAGGCAATTGAGAGCTGTTCCAAAGTTTAGGGAGTTTTTGTAAGGAATTAATAAATAAAAATGTTCTTGAAAGAGAGAAATTAATATGCAGTTCATACTGCCAG
AATTGCAGGCAATTTATCAAACTCTCCTAATCCTCCAAAATTGCTA--TTTTTTTTGACACACACTTTACAGTACAGAAGAAAATGTCTCCGGCAATAAATCACAAAGTTAAAATTACCTAGTCTACAATTAACTAGACAGTGATGGTAAATCATTTTCTACCAAAAGAAAGAAATGTCTTGTCTATTCAGGTTCTGCTCCACTTAAAAGTTTTCCTTGTTGGCGAGCAAGTGGTTAGAAAATCATATTTTATACGTACATTCAGCTTAACTATCATTCAGCTCAGGAAGATGACTCAGGGCCTTATCTATACCTTCAAGTTTGCTCTTAGCAAGTAATTGTTTCAGTATCTATATCAAAAATGGCTTAAGTCTGCAACATGTTTCTGAATGATTAACAAGGTGACAGTCAGTTCTTCATTGAATCCTGGATGCTTTATTTTTCTTAATAAGAGGAATTCATATGGATCAGCTAGAAAAAAATTAAGAGGAAAATCACATGGAAAGTtat
+
+a score=195249
+s hg18.chr1 110834 2199 + 247249719 atattatatatctattatatataatatatatctattacatat--tatatattgtatatctattacatatatattatatatgtattatatatattatatattatatatgtattatatatattatatattatatatctattatatatataatattatatattatatatCATTTCCAAATTCCCCAGCGTTCATATTTGTCAGTGCAAGTAAAGAGCCTTACTGCTGATGAGGTTTGAGGTATGACCATTTGGCCAGAATTTATGAACTCTACATGTCGCTTGATGTGTGCCTCAGGGTATACttttttttttttttt---gagacggagtcttgctctgtcgcccaggctggagtgcagcggtgcgatctcagctcaccgcaagctccgtctcccgggttcacgccattctcctgcctgagcctcctgagtagctgggactacaggcgcccgccactatgccctgctaattttttgtatttttagtacagacggggtttcaccgtgttagccaggatggtctcgatctcctgacctcgtgatccacccgcctcggcctcccaaagtgctggaattacaggtgtgagccaccacgcccggccAGGGTACACTTTTAAGCAGAGACACTACTTTGAAGGTCATAAAAAATATAATAAGAGATAAGGCTAATTTCCtttaataataataa------aatcctttaataaaaatataaaggaataatataataattttctttaataaaatataataaGAGATAAGGCTAATTTCCTTTAATAAAATATAGTAACTACATACCAACAGAATTCCAAAAAAAGAAATGGAGAGGAAGGGAGCATGGGTCATTAATCTTGTCAAAAATATAAAATTATATACGAGGAATTCCTAGAAACTGTTTTCCTTGTCTGCGGCCATTGTGCTGCTGCTACACAACTACCGCAAGCAGCCCTTCA
CGCCCTCCTCCCAGTACAAAGCTAATTGACTTGTGAGAAATGTTAAGCTTGGAAGAGTCAGCATCACTGCACTTATTTTTTATTCTACTCTGACATTAGAATAATCCTTGAGTGGGGGAAAGGTTAAAAACCCCCCTGGATAAGTGTTACTAATTAATGATGATTGTTTTAAACAATGTTTGGATAATTTTTCCTTGTCCCTTGACATAAACTTGATAAATAACTGAGAAGTGAGAAGGAGATTAGTGGGTTGATTAAATTCCATTCAGGTACTTAAAGTTAGCTCCAAAAATTTAGCTATTTGTAAATTGTCATGCATTGTTAATGTATAAGAGATGTAGATTTCATTTATCTTTGGTGGAGCGAGATGAAGCAGTGAATCATTGAAGACTGAAAGAAAGAAAAAGGTCTTTTCCCTTTTCTTTAAGAAGCATCATTAGTTAAAAACATGTTAGTTGATACCAGAGAACTATATTTAAAGGGACAGCAATAAGCAAATTGATTACTCTGGTGATTATTGGAGTGACATTGCCTTTTAGTTGTACTTTCACAAAAATTCACAATATTTGCCAAAGTCAAGTTATCCATTACACTATTAATTTGTCATTCTTTTGTTTATATAGTCAATATCTCTATCTCAATTGGATCTATCTCAACTGCTTCTAAACAAGCCACCATAGTCTCTCCCATTTCAACAATCTCTTCCAAGTACCACTTCATTTCTTCTTTTCATATTTTTGAAAACTTTTGAAAAACTACCTATTTTCCTCCTCCATTTCTTGTTCATTCCATTCTAGTGGACATGGAATCTGTTCCTCCTCCAAAACGGAATTTGGTAACCCTTAAATTACTAAACCCAAAACAATATGTTGTCTTTATCTTTACCTCTCTGTGGCATTTAATGATAAGACCACTACTTTCTTCTCTTTTACCCTTCTTTCTTGAATTCAGTCAGACAACGTACTTACATTTTTCGTCTTATTCTCCAT
CTTAGAAACCACCTCAGCTTTCTCCATTCAGCTATAAAATTGTGCTTTTCCTCAAAGATTAATCTGCCTCTCCTCTCACTCTATACTATCTCTGTTAGCTAATTTTATTTGTGCACATTGCTTATACTGGGCATTATATACACATATGCATGTGTGTACATGTGCACACACACACTGTATGTGGACatgtatatatatatatgtgtgtgtgtatatatatagtatatatataAATTACAATAACATAAAGGTGGCATTTTAAATTAGTGGA
+s panTro2.chr1 260178 2182 + 229974691 atattatatatctattatatataatagatatctattatatatattatatattgtatatctattacatatata------------------------atattatatatctattatatatattatatattatatatctattatatatataatattatatattatatatcATTTCCAAATTCCCCAGCGTTCATATTTGTCAGTGCAAGTAAAGAGCCTTAGTGCTGATGAGGTTTGAGGTATGACCATTTGGCCAGAATTTATGAACTCTACATGTCGCTTGATGTGTGCTTCGGGGTACACttttttttttttttttttgagacggagtcttgctctgtcgcccaggctggagtgcagcgatgcgatctcagctcaccgcaagctccgtctccctggttcacgccattctcctgcctgagcctcctgagtagctgggactacaggcgcccgccactatgccctgctaattttttgtatttttagtacagacggggtttcaccgtgttagccaggatggtctcgatctcctgacctcgtgatccacccgcctcggcctcccaaagtgctggaattacaggcgtgagccaccacgctcggccAGGGTACACTTTTAAGCAGAGACACTACTTTGAAGGTCATAAAAAATATAATAAGAGATAAGGCTAATTTCGtttaataataataataataaaatcctttaataaaaatataaaggaataatataataattttctttaataaaatataataaGAGATAAGGCTAATTTCCTTTAATAAAATATAGTAACTACATACCAACAGAATTCCAAAAAAAGAAATGGAGAGGAAGGGAGCATGGGTCATTAATCTTGTCAAAAATATAAAATTATATACGAGGAATTCCTAGAAACTGTTTTCCTTGTCTGTGGCCATTGTGCTGCTGCTACACAACTACCGCAAGCAGCCCTTCA
CGCCCTGCTCCCAGTACAAAGCTAATTGACTTGTGAGAAATGTTAAGCTTGGAAGAGTCAGCATCGCTGCACTTATTTTTTATTCTACTCTGACATTAGAATAATCCTTGAGTGGGGGAAAGGTTAAAAACCCCC-TGGATAAGTGTTACTAATTAATGATGATTGTTTTAAACAATGTTTGGATAATTTTTCCTTGTCCCTTGACATAAACTTGATAAATAACTGAGAAGTAAGAAGGAGATTAGTGGGTTGCTTAAATTCCATTCAGGTACTTAAAGTTAGCTCCAAAAATTTAGCTATTTATAAATTGTCATGCATTGTTAATGTATAAGAGATGTAGATTTCATTTATCTTTGGTGGAGTGAGATGAAGCAGTGAATCATTGAAGACTGAAAGAAAGAAAAAGGTCTTTTCCCCTTTCTTTAAGAAGCATCATTAGTTAAAAACATGTTAGTTGATACCAGAGAACTATATTTAAAGGGACAGCAATAAGTAAATTGATTACTCTGGTGATT-TTGGAGTGACATTGCCTTTTAGTTGTACTTGCACAAAAATTCACAATATTTGCCAAAGTCAAGTTATCCATTACACTATTAATTTGTCATTCTTTTGTTTATATAGTCAATATCTCTATCTCAATTGGATCTATCTCAACTGCTTCTAAACAAGCCACCATAGTCTCTCCCATTTCAACAATCTCTTCCAAGTACCATTTCATTTCTTCTTTTCATATTTTTGAAAACTTTTGAAAAACTACCTATTTTCCTCCTCCATTTCTTGTTCATTCCATTCTAGTGGACATGGAATCTGTTCCTCCTCCAAAACGGAATTTGGTAACCCTTAAATTACCAAACCCAAAACAATATGTTGCTTTTATCTTTACCTCTCTGTGGCATTTAATGATAAGACCACTACTTTCTTCTCTTTTACCCTTCTTTCTTGAATTCAGTCAAACAACGTACTTACATTTTTCGTCTTATTCTCCAT
CTTAGAAACCACCTCAGCTTTCTCCATTCAGCCATAAAATTGTGCTTTTCCTCAAAGATTAATCTGCCTCTCCTCTCACTCTATACTATCTCTGTTAGCTAATTTTATTTGTGCACATTGCTTATACTGAGCATTACATACACATATGCATGTGTGTACATGTACACACACACACtgtatgtggacatg--tatatatacatgtgtgtgtatatatatatagtatatataAAAATTACAATAACATAAAGGTGGCATTTTAAATTAGTGGA
+
+a score=17777
+s hg18.chr1 113033 202 + 247249719 aattaccctgatttgatcactacacattctatacatgtaaagaaaatatcactctgtatcccaagaatatgtacaattatggtttgtcaaatgaaaaAGTTCATACATTGAAAAATTTTAGATAAATATCAAACTTTCTCTGAAACTGTAACTGTAAAATGTAAAAAACAGTAATTGCTATATTGCTTATTTCTGAGTAGAA
+s panTro2.chr1 224022798 201 + 229974691 aattaccctgatttgatcactacacattctatacatgtaaag-aaatatcactctgtatcccaagaatatgtacaattatggtttgccaaatgaaaaAGTTCATACTTTGAAAAATTTTACATAAATATCAAACTTTCTCTGAAACTGTAACTGTAAAATGTAAAAAACAGTAATTGCTATATTGCTTATTTCTGAGTAGAA
+
+a score=3621
+s hg18.chr1 113251 39 + 247249719 CCTAATCATTATGTGTAATTACAATTACATATATATATG
+s panTro2.chr1_random 1172673 39 - 9420409 CCTAATCATTATGTGTAATTACAATTACATATATATATG
+
+a score=4427
+s hg18.chr1 113290 49 + 247249719 TAATTGTAATTACACATAATGATTAGGGAAATGTCTCATATTCTATATA
+s panTro2.chr10 95659061 49 - 135001995 taATTGTAATTACACATAATAATTAGGGAAATGTCTCATATTCTATATA
+
+a score=46693
+s hg18.chr1 113339 531 + 247249719 TATAGACAGAAAGAGAGAAAATATATGAGGGAGAGAAGGAATCTTTCCATCTCCTTTGAGTTCCACGGTGTTGAGAGTCAGGACAACTGCAATTGCTTCATCATGCCTGCTTGCAATTATAGGGCTTTTGAACCATTTGTTCCCTCCTTAGATATCCTCATTTTTTTCAGATTCTTGCTTAGAAGTCACTCCTCCGTGGACCTCCTCTGACATATTAAACATTGCAGTCCATtataagctgcaagaggacagggatttttgcctgttttattccctactgtatcaccaggggctagagcaatatctgacaaacagtgggcatgtaatgaatatttgttaagtgaaGTAATAAATTCaatcaaatcacatcacctgtttaaagcacttcattggcttcacattgcacttagaataaagagaaattctttttatacaatatacaatatattttatacaatataagttcctgcagaatgcagacactttctacttctccagcctcttttcgactcctctcctactagcttctgt
+s panTro2.chr1_random 1172712 510 - 9420409 TATAGACAGAAAGAGAGAAAATATATGAGGGAGAGAAGGAATCTTTCCATCTCCTTTGAGTTCCACGGTGTTGAGAGTCAGGACAACTGCAATTGCTTCATCATGCCTGCTTGCAATTATAGGGCTTTTGAACCATTTGTTCCCTCCTTAGATATCCTCATTTTTTTCAGATTCTTGCTTAGAAGTCACTCCTCCGTGGACCTCCTCTGACATATTAAACATTGCAGTCCATtataagctgcaagaggacagggatttttgcctgttttattccctactgtatcaccaggggctacagcaatatctgacaaacagtgggcatgtaatgaatatttgttaagtgaaGTAATAAATTCaatcaaatcacatcacctgtttaaagcacttcactggcttcacattgcacttagaataaagagaaattct---------------------ttttatacaatataagttcctgcagaatgcagacactttctacttctccagcctcttttcaactcctctcctactagcttctgt
+
+a score=20908
+s hg18.chr1 113870 240 + 247249719 atttaagccatattagacctttcttcagttttttatatagactttgtcgcatcacacctcagagattctgtacatgttcttcctcctgcctagaaaggatcgtccctccacttttgccaactaatccctgctcaacttttcatctcagcaggaggcccattctctttggcaatcctctggcctccagcccatttattatatgctcacatgtcaacatgtacttcgtacagcatgtaacac
+s panTro2.chr1 224023740 240 + 229974691 ATTTAagccacattagaccattcttcagttttttctatagacttcgttgcatcacacctcagagattctgtacatgttcttcttcctgcctagaaaggatagtccctccactttcgccaaataatccttgctcaacttttcatctcagcaggaggcccattctctttggcaatcctctggcctccagcccatttattatatactcacacgtcaacatgtacttcgtacagcatgtaacac
+
+a score=390882
+s hg18.chr1 114110 4346 + 247249719 aattgcacttttatattttaacaaattatatttcccatattgaactgtaagtctcctgaaagcaggaattttgttcttgctcatcatcaactttttcaacatccagtgcaccatttagaacttagatgtagtcaatacaggtttgtggaatgaaagaGGAAAAGAAAGAATTAATATTCCTTTAAATTAGGATGGCAAAGATCGTATATAGAAAATTGGCTAAGTTGTGGTCCATTCATGTTTGCTCCCAATTAAGGAGCACAGCTATGAAAAGGAAGGCTTCAAATTAATAACCAATAGATTTTTTTAAAAAGAAAACTggccaggtactgtggcttatgtctgtaatatcagcatgttgggaggccaaggcaggattacttgagcccagaaattccagaccagcctgagaatttggcaaaactctgtctctacaaaaaatacaaaaattagccaagtttggtggcatgtgcctgtagtaccagctacttgggaggctgaggtggaagaatagcttgagtctgggaggtcaaggctgcaatgagctgtgattgcaccactgcactcaagcctgggtggtagagtaagaccctgtctcaaaaaaaaaaaaaaaaaaagaaaaaTCACTAAGCAAAATAAGACATGTGAAGGATCATGTCAAAGGAAAGAAAAATTAGGGGAACATTAAAAGCTTTCTTCCCAAGCCACTAAATCAACTTGACTAACAAAATTACCACTTGATTTAGTATTAGAAAATTACATTACATATCAAACATAAACCCATTAATCAAATACTAAAGAAATTTCTGAGTTAAATGGTATAATGTTAGCTTATGCCAGAGCTGACCTTGAAAGATTGTTCAAATATGGCTCAGTGTGATTGAAAGTTCTGTGTGAATATGTTTTTGGAAAGATCCAACAGCAACACCTTAGTGTATGTTTTTGAAATA
AAATATATCTGAGTAGCAGCAAAGTTATTCTCAAATTTCCATTTTATAGCTGGAGATGTTATACCGTGACGTACATGATAGGACCCAATATGGATCAATCCCTTTTAGAAGTCAATCAGGAAGAGGGGAGCAGTTAAAACAGTTGCTTGGTTTACAAACATTAGAACAATTTTCTTATTCACACCATCTGATTATTGTATGTTATTTTTTCCCCAACGTTTAGACTACACAATGAGTTAAGAATGATAAAAATAAGCTCACCAATATACTATGTACATATTTACCAAAATCTGTGCATGCTTATACATATAAACACAGCTGATAATTTATTAGTTAGGCTCATTTGTAATTTTTGTCACTATAGACCAGTTTTTTATTTAAATTGAAGATTAGTATACATTTTAAATGATTAGTCAAAATAAAAAATCTAAAATGTGCTCTAAATACCTCTTAGGTCAG-AAAAAAAAAGTCAAAAGCTAGAGTATAGAGAAATTAAGAAACGCCCTAAATTTCTAATCTGACAAAAATTCATACAAGATTTAAATATTTTAATGGAAAATAGAACAGAACTAATTATTGAAGAAATTATAGAAAGGAAACAAAATAAACAGATTATATGGAGGATTTTTAGAAGATAAGTAAATAAATTAATATACTAGGAAAAAACAAGGGAAATATACTTGATAAATAAATACAGGTAAGAGTTCTTTTGAAATAATGATAAAATAGAAAATCTCTGTCAAAACTAAAAGGAAAGATGCATAAATATATAAATAAACGATAAAA-AATGTTGCATACATATATGACTTTTTCAGAATCAAAAAATTTAAATTTCTGtaataaaatttaaatgtttataaatttaaaaaactagaagaaagaatgttgactgttcacaatacaaataaatgacaactatttgaggtgatggatacgctaattatccttatttgatcactgggcattgtatacatgtatcaaaatatc
actctgtatcccatgaatatgtacaattatttgtctcaaaaacaaacaaaaAaaagataatgggagaatgttgaaaactcagagagaagagcaactctcacagatagggatccagataacattagcagctgatttctcagcagaaaccttgaaggccagtaggcagtggattatatatttaaaataatgaagaaacctgtcaattgagaaatatatagctggaaaacttatccttcaaaaatgaaggagaaattaagacatttccggatttttttttaaaactg-aaaaaaatccatttatccctgaatttgacattcaggaagtgttaagtccttcaggttgaaataaatgaactctaggcaataactatataagtaaataagcaagctgtatgaatatacaaagctctctggtaaaggtaaatacataaacaaacataaaaacagtcctattgtaattttggtttgtaactctgctttttattttctacataatttaaaaggcaaatgcataaaatgtaattgtaaatctgttagctggtatacaatgaataaagatataatttgtcacatcaataacataaaaagagtagagctatatatatagcagtagaattttggtatgtgattgaacttaagttgaaataaattcaaattaaaatgttataactctaggatgttatatgtaattctcatagtaaccaaaaatgaaatatacatagaatataaacaaaaggaaatgagactagaaacaaaatgtgtcactacaaaaaaatcaactaaagataaaaaagaaataattgagaaaatgattggcaaaaaTCAGTAACTCTGACGTATTAAAACTTTCCATGCTACATAAATCTGAAAACTCTATTTCACATAAAACTGGAGCTGAAAGAAACAAATATTTACCTATAAAGTTAAAAGTTATATAGGGAACAAACACtaattttttttagaaaaaattataaaaaGAGTAAAAATAT
GCCTTATACTACCGTAATTTCATGTTTTACAGCTCTGGGAAAATAGAAAATAAAATGTTCTGTTAGCATGAATCCCTCTGTGCCCCCAAAAAACCCTATGGATTGCATCATTATTACCTAAAAAGTCTATTCTCAAATGCAGCAGAGTGATATTTTTTACAAGGTAGATATTAATTTTAGATATGGAATAATATTGGTGATTTCAATTTTATAACACTGGGTTAAGATGAAAGAATGAGAAGATAAAGGTCCCTCAGCAATATAACTCACAAACATGTTCAGAAGCAGTAAGAAGTTACATTAATTATCTTTTGAAAGTCGATAATCTACATCTTTAATGTATGCATATAGCATAGCTAATGTACTATCCCTGGGtccatttattcaatgaataattgccgctatgtgtcagacatttttctaggcctaggaatggatacataagtgaacaaagcaaagattctggttcttgtagagtttccattaaaagacaatTTAGTAAAACTTTTCTTCCCCCAAATTATAAAATCTGTAAGATGATTTAACAACATGTGTAAAAGTCATTGTGGGCCAGGCACGGTGGCTCATACCAGGTGTGGTGACTCATAGcactctgtcacccaggatggagtgcagtggcacaatctctgctcactgcaacctctgcctcctgggtacaagcgattctcctgcctcagctttctgagtagcaaggactacaggtgcacaccatcacgcctggctaatttttgtactattagtacagacggagtttcaccatgttggccaggctggtctcgaactcctgacctcaaatgatccatctacctcggcctcccaaagtgctggaattacagatgtgagccacaatgcccggccTTATTTTCTACAACTTTGGTAACTTTAGCATATACCCCAAATCTGTAAGACATAATATTATAATTCAAATGCAACTCATGGCTTCTCTTTGTACTCTTTCTCTAGCTTTT
GAATTATTTATTCTAATACCAGTTTTAATTCTGACACAAAATCATGGGAGTTCTAATCAAAATCCAACCTTTTATCATAAAAACTATGAAGAAATTATGAGTAGAATTTAAAAAGGAAAATAGGCCTATTAATTAGATTTGTCTTTGTAGCATTTAACTCTATAATAA-----ATAATATTTTATGCCTATGAGTCCCCAACAAAGCCTCCAGCTTCTATTTAGATATAAACTGTAAAAGTCACTACTGGATCCACAAGCAAGACTATGGTAAATAAATTTCTCCACCTAACCAGCTTCTTTTACATGATGTTACATGTTTCTTTTGTTTTttcattttggcaaatattgattgtcatcttcgtgtttgtctatgtcctaagtgctgggatacagaatctgaaaagatggacacaggacctgccttcaagttcaccc
+s panTro2.chr1 262360 4344 + 229974691 AATTGCACTTttatattttaacaaattgtatttcccatattgaactgtaagtctcctgaaaggaggaattttgttcttgctcatcatcaactttttcaacatccagtgcaccatttagaacttagatgtagtcaatacaggtttgtggaatgaaagaGGAAAAGAAAGAATTAATATTCCTTTAAATTAGGATG-CAAAGATCGTATATAGAAAATTGGCTAAGTTGTGGTCCATTCATATTTGCTCCCAATTAAGGAGCACAGCTATGAAAAGGAAGGCTTCAAATTAATAACCAATAGATTTTTTAAAAAAGAAAACTggccaggtactgtggcttatgtctgtaatatcagcatgttgggaggccaaggcaggattacttgagcccagaaattccagaccagcctgagaatttggcaaaactctgtctctacaaaaaatacaaaaattagccaagtttggtggcatgtgcatgtagtaccagctacttgggaggctgaggtggaagaatagcttgaatctgggaggtcaaggctgcaatgagctgtgatcgcaccactgcactcaagcctgggtggtagagtaagaccctgtctcaaaaaaaaaaaaaaa----gaaaaaTCACTAAGCAAAATAAGACATGTGAAGGATCATGTCAAAGGTAAGAAAAATTAGGGAAACATTAAAAGCTTTCTTCCCAAGCCACTAAATCAACTTGACTAACAAAATTACCACTTGATTTAGCATTAGAAAATTACATTACATATCAAACATAAACCCATTAATCAAATACTAAAGAAATTTCTGAGTTAAATGGTATAATGTTAGCTTATGCCAGAGCTGACCTTGAAAGATTGTTCAAATATGGCTCAGTGTGATTGAAACTTCTGTGTGAATATGTTTTTGGAAAGATAAAACAGCAACACCTTAGTGTATGTTTTTGAAATA
AAATGTATCTGAGTAGCAGCAAAGTTATTCTCAAATTTCCATTTTATAGCTGGAGATGTTATACCGTGACATATATGATAGGACCCAATATGGATTAATCCCTTTTAGAAGTCAATCAGGAAGAGGGGAGCAGTTAAAACAGTTGCTTGGTTTACAAACATTAGAACAATTTTCTTATTCACACCATCTGATTATTGTATTTTATTTTTTCCCCAACGTTTAGACTACACAATGAGTTAAGAATGATAAAAATAAGCTCACCAATATACTATGTGCATATTTACCAAAATCTGTGCATGCTTATACATATAAACACAGCTGATAATTTATTAGTTAGGCTCATTTGTAATTTTTGTCACTATAGACCAGTTTTTTATTTAAATTGAAGATTAGTATACATTTTAAATGATTAGTCAAAATAAAAAATCTAAAATGTGCTCTAAATACCTCTTAGGTCAGAAAAAAAAAAGTCAAAA-CTAGAATATAGAGAAATTAAGAAATGCCCTAAATTTCTAATCTGACAAAAATTCATACGAGATTGAAATATTTTAATGGAAAATAGAACAGAACTAATCATTGaagaaattatagaaaggaaacaaaataaacagattatatggaggatttttagaagataagtaaataaattaatatactaggaaaaaacaagggaaatataattgataaataaatacaggtaagagttcttttgaaataatgataaaatagaaaatctctgtcaaaacttaaaggaaagatgcataaatatataaatAAATGATAAAACGATGTTGCATACATATATGACTTTTTCAGAATCaaaaaatttaaatttctgtaataaaatttaaatgtttataaatttaaaaaactagaagaaagaatgttgactgttcacaatacaaataaatgacaaatatttgaggtgatggatatgctaattatccttatttgatcattggacattgtatacatgtatcaaaatatc
actctgtatcccatgaatatgtacaattatttgtctcaaaaacaaaCaaacaaaagataatgggagaatgttgaaaactcagagagaagagcaactctcacagatagggatccaggtaacattagcagctgatttctcggcagaaaccttgaaggccagtaggcagtggattatatatttaaaataatgaagaaacctgtcaattgagaaatctatagctggaaaacttatccttcaaaaatgagagagaaattaagacatttccggattttttttttaaactgaaaaaaaatccatttatccctgaatttgccattcaagaagtgttaagtccttcaggttgaaataaatgaactctaggcaataactatataagtaaataagcaagctgtatgaatatacaaagctctctggtaaaggtaaatacataaacaaacataaaaacagtcctattgtaattttggtttgtaactctgctttttattttctacataatttaaaaggcaaatgcataaaatgtaattgtaaatctgttagctggtatacaatgaataaagatataatttgttacatcaataacataaaaagagtagagctatatgtatagcagtagaattttggtatgtgattgaacttaagttgaaataaattcaaattaaaatgttataactctaggatgttatatgtaattctcatagtaaccaaaaacaaaatatacatagaatataaacaaaaggaaatgagactagaaacaaaatgtgtcactacaaaaaaatcaactaaagataaaaaagaaataattgagaaaa----tgGCAAAAATCAGTAACTCTGACGTATTAAAACTTTCCATGCTACATAAATCTGAAAACTCTATTTCACATAAAACTGGAGCTGAAAGAGACAAATATTTACCTATAAAGTTAAAAGTTATATAGGGAACAAACACTAATTTTTTTTAGACAAAATTCTAAGAAGAGTAAAAATAT
GCCTTATACTACCCCAATTTCATGTTTTACAGCTCTGGGAAAATAGAAAATAAAATGTTCTATTAGCATGAATCCCTCTGTGCCCCCAAAAAACCCTATGGATTGCATCATTATTACCTAAAAAGTCTATTGTCAAATGCAGCAGAGTGATATTTTTTACAAGGTAGATATTAATTTTAGATATGGAATAATATTGGTGATTTCCATTTTATAACACTGGGTTAAGATGAAAGAATGAGAAGATAAAGGTCCCTCAGCAATATAACTCACAAACATGTTCAGAAGCAGTAAGAAGTTACATTAATTATCTTTTGAAAGTCAATAATCTACATCTTTAATGTATGCATATAGCATAGCTAATGTACTATCGCTGGGtccatttattcaatgaataattgccgctatgtgtcagacatttttctaggcctaggaatggatacataagtgaacaaagcaaagattctggttcttgtagagtttccattAAAAGACCATTTAGTGAAACTTTTCTTCCCCCAAATTATAAAATCTGTAAGATGATTTAACAACATGTGTAAAAGTCATTGTGGGCCAGGCATGGTGGCTCATACCAGGTGTGGTGACTCATAGcactctgtcacccaggctggagtgcagtggcacaatctcggctcactgcaacctctgcctcctggatacaagcgatgctcctgccccagctttctgagtagcaaggactacaggtgcacaccaccacgcctggctaatttttgtactattagtacagacggagtttcaccatgttggccaggctggtctcgaactcctgacctcaaatgatccgtctacctcggcctcccgaagtgctggaattacagatgtgagccacaatgcccggccTTATTTTCTACAACTTTGGTAACTTTAGCATATACCCCAAATCTGTAAGACATAATATTATAATTCAAATGCAACTCATGGCTTCTCATTGTACTCTTTCTCTAGCTTTT
GAATTATTTATTCTAATACCAGTTTTAATTCTGACACAAAAGCATGGGAGTTCTAATCAAAATCCAACCTTTTATCATAAAAACTATGAAGAAATTATGAGTAGAACTTAAAAAGGAAAATAGGCCTATTAATTACATTTGTCTTTGTAGCATTTAACTCTATAATAAATAACATAATATTTTATGCCTATGAGTACCCAACAAAGCCTCCAGCTTCTATTTAGATATAAAATGTAAAAGTCACTACTGGATCCACAAGCAAGACTATGGTAGAGAAATTTCTCCACCTAACCAGCTTCTTTTACATGATGTTACATGTTTCTTTTGTTTTTTCATTTTGGCAACtattgattgtcatcttcgtgtttgtctatgtcctaagtgctgggatacagaatctgaaaagatggacacaggacctgccttcaagttcacCC
+
+a score=572998
+s hg18.chr1 118459 6270 + 247249719 tttttttttttttttgagatgcagttttgctcttgtcacccaggctggagtgtactggtgagatctctgctcactgcaacctccaccttcagggttcaagtgattctcctgcctcagcctcccaagtagctgtgattacaggtcccagccaccacgcctagctaatttttgtatttttagtagagacagcgtttcatcatgctggtcaggctggtctcgaactcctaacctcaggtagtcgacccacctcggcctcccacagtgctgagattacaggcatgagccaccacgccctgctaggagttcacgctttagttggggaaaatatacaataagcaagccagtttttaaaatgagaactgcaattagagttaaatgctacaaagacaaaCTCACAGGAAGATGGGATGTAGAATGATAAGGCTCTCAGAATAGTAAGAGAAACTATTGCTTCTTACGATGTTTGTCTTTCTTTGTATCGGTGCTCAGCTGAGTCTGCAGTGCTTCAGAGGCAGCTTTCATTTTATAAAAATCTATGATTTCTCCTTCCAGTTTTTTTTTCTCTTCCTCGAGCTTCCTTATCTCCTCCTGTTGAATCATTTTAAGATGCTCGAACTTGTCCTGCAGCTGTGAAACCAATGTGCAGTTGTGACACCAAAGCAGTGTGGCTGAACACCTAAAAGAATACGCTTTTTTTCTGATTATCAAACAAACCCAAATCATCACAGTAGACCACGATCTTAATAACAATCTCAAAAACTCAGGAGTAAACACTCAGATATGGAAtttttcttttctttcttttttccttttataagatggagtctcactctgttgcccaggctggagtgcactggtgcgatctcagctcactgcaacctccatctcccagttcaagtgattctcctgcctcagcctcttgagtagctgggactataggcatgcaccac
cactacaggcgtgtgccaccacacctggctaatttttgtatttttagtagagatggggttttgccatgatggccaggctggtctcgaactcctgacctcaggtgatcctcccgctttggcctcccaaagACtttttttttttttttaatatagagacaagttctcagtacgttgcccaggctggtctcaaactcctgagctcaagtgatcctcccacctcagcttcccaaagtgctgggactGActggatgcagtggctcatgcttgtaaactcagcactttgggaggccaaggtgggaggatcgcttgagcccaggagttcaagaccagactgggtgatataacACAATAGTCAACTTCaacaggagagagaatctgtaaacttgaatatagatcttccgaaattatccagtcagtggacagagaaaaaaagaataaaagagagaaaagaaggctgggtgtggtggctcaagcctgtaatcccaacactttgggaggccgaggcaggcagattaagaggtcaggagttcaagaccagcctgtccaacatgacaaagccccatctctactaaaaatacaaaaattagccgggtgtggtggcacacacctgtagtcccagctacttgggaggctgaggcaggagaatcgcttgaacccaggaagcggaggttggagtgcaatgtgagccgagaccacacattacactccagcctgggtgacagagcatgactctgtctcaaaaagaaaaaaa--------------aaagagacagagaaaagaaagccaacaagacaccattaagcaaaccattgtcaggttatgggagtttgagaaggaaagtagagaaaggagaataaagcttatttaaagaatggctgacaactgcctaaatcatgggaaagatttagacatctaaatccatgaagcttaaagattcctaaagaggttcaaaccaaatagatactcaccaagtcacaatataatca
aatagtcaaaagttaaagaaactttgcaggtcaggacagaatcgaataatacattcaaagtgctgaaagaaaaaaactgccagcaactaatactatgtctgacaaagctgtccttcagaaaggaaaaagaaataatgtgtttcctcgacaaacaaagctgagggcattcaggaccactaggtctaccttaaaaaaatgcttaacggagtttttcaagtaaaaatgaaTGAAGTTgggagcggtggctcatgcctgtaatcccattttgggaggctgaggtgggtggatcacctgaggtcgggaggtcaagaccagcctggccaacatggcaaaaccccacctccagtaaaaatacaaaaaattagccaggtatgaaggccactgagatcgtgccactgcactccagcctgggtgacaagagtcaaactacatttcaaaaacaaaaaacaaaacaaACAAAAAAAACAAAACTTGAGGCCTGGCCTTCTGCTCCTCTCCAACCTCCCCTTCTCTGGGCCCAAGCCACCTTGGCTGAGGAGGGGGCGAGGAGGTGTGAGCCCCTGCCAGGAACCCCCTGCCCGGACCAAGTGCTCGGCCCCCAGGCCTGCGTTCAGTGAGGCCTCCCGTGGCGTCAGCATGTTCGTGTGGAGGAATGTGGAAGGTCACTCTGCGGCCGTGTTCTCCTGGTACTCCATCCCCTTCCTGACCCCTCCCTGCAGCCACACGAGGCCCAGCAACCTGCCAGTCACTCAGTGGCCTCCAACCAGAGAAAACAACCTGCCAAGTTGGCAGCTGTTGCTCATGAGCGTCCACCAGGTGGGACAGGGAGTGTTGACCCTGGGCGGCCCCCTGGAGCCACCTGCCCTGAAAGCCCAGGGCCCGCAACCCCACACACTTTGGGGTTGGTGGAACCTGGTAAAAGCTCACCTCCCACCATGGAGGAGGAGCCCTGGGCCCCTCAGGGGAGTCCCTGCTGGACAGTGAGACAG
AGAATGACCATGATGATGCTTTCCTCTCCATCATGTCTCCTGACACCCAGTTGCCTCTACCACTCAGATGATGTCAGGCCCAGTCCCTCAGTGCCCTGCGCAAGGAACAGGACTCATCTTCTGAGAAGGATGGACGCAGCCCCAACAAATCAGACAAGGACCACATCCGGTGGCCCATGAGTGGCGCTCATGATCTTCAGCAGGCGGCACCAGGCCCTGGCGGGGCGCACCAGGGTCACCCCAACCAGGATAACCGGACCGTCAGCCAGATGCTGAGCGAGCGGTGGTACACCCTGGGGCCCAATGAGATGCAGAAATAC---AACCTGGCCTTCCAGGTGAAGGTGGCCCACTTGCAACAAGGACCGAAAGAAGTCCAGCTCAGAGGCCAAGCCCACAAGCCAGGGGCTAGCAGGAGTGTAACAAGGGCTCGTGGGAGCGGAGCATATCAGAGACGGGCACTGCCACTGCCCCTGGGGTGTCCTCTGAACTCCTGTCAGTTGCAGCCCAAACACTCCAGAGCTCGGATACCAAGGAGCAGCTTCTGTGGGGCAGAACGGCTGCACACAGTCAGGGAACCTGGCTCAGCCTGGCCCAAGCCTTCTCCCACAGCGGGGTACACAGCCTGGACGGCAGGGAAATAGACCGTCAGGCACTACGGGAACTGACACAGGTGGTGTCTGGCACTGCATCATACTCTGGCCCAAAGCCTTCTACTCAGCATGGAGCTCCAGGCCACTTTGCAGCCCCTGGTGAGGGAGGTGACCCGTGGGCAGCCCTGCTGCCGCCCACGTGAGCTGCTCATTCCCAGCACATGGCCAGCGAGGTCATAGCGAGTGACGAAGAGCACACGGTCATCCATGAGGAGGAGGGGGTGATGATGTCATTGCTGATGATGGCTTTAGCACCACCGACACCGATCTCAAGTTCAAGGAGTGGGTGACCGACTGAGAGTGGGGACAACTCTGGGGAGGAGCCAGAGGGCAACA
AGGGCTTTGGTGGGAAGGTATTTGCACCTGTCATTCCTTCCTCCTTTACTCCTGCCGCCCCTTGCTGGATCCTGAGCCCCCAGGGTCCCCCGATCCACCTGCAGCTTTTGGCA--GTCTATGGTCACACCCTGTCCTCCTCCTACACATACTCGGATGCTTCCTCCTCAACCTTGGCACCCACCTCCTTCTTACTGGGCCCAGGAGCCTTCAAAGCCCAGGAGTCTGGTCAACGCAGCAGAGCGGGCCCCCTACGGCCCCAACCCCTGGGGATGGGGGCCCAGGGACGCCTTCCAAGGTGGCCTGTTTCCTCCCAATGGATCCTGCCACCTTCTG-------GTGCAAGAGACCTGAAAGTGTGGGCGACCTGGAGCTACCAGGCTCCTCAGTCATCAGGGTCCCTCCCAACACTAAGGCTTTCCTAGGCAGGAGCTGGGCTGAGCCACCCGGGGGGCAGAGCCTGAAGAGAAACTGACTGGGCTTTCGGGGTCGGGGCAGAGGGAACCCCACGGACATGGACCCCACACTGGAGGACCCCACCGCGCCCAAATGCAAGATGAGAAGATGCTCCAGCTGCAGTCCAAAGCCCAACACCCCCAAGTGTGCCATGTGTGATGGGGACAGCTTCCCCTTTGCCTGTACAGGTGGAGAAGCCGAGGACAGGCTCAGGGAACCGGAGACCAAGAAGGCGCTGTCCTCTTCACTGCATGTACCCTGGACCAGTGCCGGCCCTGATCATGCAGCTCTTCCAGGCCCACTGCTTCTTCCTGTCCACTAGGCCACAGCCGCCCTCCAGGCCCACTATGCACACATCTTCCCCTCCAAGGTTTGTTCTGCCCCTGCCCTGACTCCCAGCCCTGTGGGGGTCCTGACCGCACCTCACCTGGCTCAGACTCTTGACGCTGCCCTGGCTGCCCCACCAGTGCTTCTGCCCGAGAGTCACGTGAGGCTGAGAGTAGGGGCAGGGGCAGCAGTGGTGCCAGTTG
GGGGGCGGTCCAGTGGGAGGAGCCTCAGCCTCGCAGGCTGCTCCGTGGGACTGATGACTGCATGATCTTCTGGGCACCTCACGGATCTTCAACTGCAGGTGAAACGGATGCTGGTGGTGGGTGCAGGGCCGCTGGGAGCTGCTGCATGGTTCCCAGAGGCTGGACTGAGGCAGGTGCCAACTGAAGCTGCTGGGGCAGCATGGGCAGGATGTTCTGCACACAAACCTTGGAGAAGAAGATGTGTGCATAGCAGGTCCACTGCTGCTGCCCCTGCCCTGACTCCCAGCCCTGCCTGACCCCACCTCAACCTGCTCAGGCTCTGGCACAACCCTGGCTGCCCTGCCACTGCCTCTGCCCCAGAGTTGGTGCCTTGACAGCCTGGTTGGAAGGGGACACCCCAGCCCTGCCTCAACACCTGGGGGTCTCCATAACTAGCACAGGCAGGTGGGCAACCCCAAAGATCCCAGGACTCACAGTACCCCCTGAGAACATGGACAGTATGTGGGGGTAGCAATGGAGGGCAGGATGGTTATCTTCTCCCAGGTGAAGCCATTTAATCCTTTCAGTTTGGGACGGAGTAAGGCC--------TTCCtttttttttttttttttttttttttttttgagaccgagtcttgctctgtcgcccaggctggagtgcagtggtgcgatcttggctcactgcaacctcttcccgctgggttcacgccattctcctgcctcagccttccgggtagctaggattacaggtggacgctaccacgtccggctaatttttgtatttttagtacagacggggcttcatcatcttggccaggctgatttcgatctcctgacatcgtgatctgcctgcctccccctcccaaagtgctgggattacaggcgtgagccaccacgcctggccAAGGCCTGCTCCTCTTATCTATACCCCCTACCCCTGCAGCTGTGCC-GGGGGAAAGCTGGGCAGTTTCCCTCCTCCGAGCCCC
TGTACATACCATGAATTGTGGGACCTTCAGAGCTTTTCACTTTTCGGAAAATAGCTCCTGCTGGGGCTACAAGATGGAGTGTGAAGAGGGCCTTGGGCCACAGGGAGGCGCCTGTGGACTAGGGGGAGTTCATGCACCCCTTCTTTCCCCAGAGGGGCTGGACTCAGGTGAGTATGGGGGTGGGGGCTCCTGCACTTCGACACAGGCAGCAGGAGGGTTTTCTCCCCATTCCCTCTGCACTCCCAACTTGAGCTATACTTTTTAAGAAAGTGATTCACCCTGCCTTTGCCCCCTTCCCCAGAACAGAACACGTTGATCGTGGGCGATATTTTTCATTGTGCCAAAAAGTTGCCATGACCGTCATTAAACCTGTTTAACACCAAATAATAAGGAAAATAAAATAAAAAATT
+s panTro2.chr1 267601 6301 + 229974691 tttttttttttttttgagatggagttttgctcttgtcgcccaggctggagtgtaatggtgagatctcggctcactgcaacctccacctccagggttcaagtgattctcctgcctcagcctcccaagtagctgggattacaggtcccagccaccacgcctagctaatttttgtatttttagtagagacagcgtttcatcatgttggtcaggctggtctcgaactcctgacctcaggtagtcgacccacctcggccttccacagtgctgagattacaggcatgagccaccacgccctgctAGGAGTTCATGCTTTAGTTCGGGAAAATATACAATAAGCAAGCCAGTTTTTAAAATGAGAACTGCAATTACAGTTAAATGCTACAAAGACAAACTCACAGGAAGATGGGATGTAGAATGATAAGGCTCTCAGAATAGTAAGAGAAACTATTGCTTCTTACGATGTTTGTCTTTCTTTGTATCGGTGCTCAGCTGAGTCTGCAGTGCTTCAGAGGCAGCTTTCATTTTATAAAAATCTATGATTTCTCCTTCCAGTTGTTTTTTCTCTTCCTCGAGCTTCCTTATCTCCTCCTGTTGAATCATTTTAAGATGCTCGAACTTGTCCTGCAGCTGTGAAACCAATGTGCAGTTGTGACACCAAAGCAGTGTGGCTGAACACCCAAAAGAATATGCTTTTTT-CTGATTATCAAACAAACCCAAATCATCACAGTAGAGCACGATCTTAATAACAATCTCAAAAACTCAGGAGTTAACACTCACATATGGAAttttttttttctttctcttttccttttataagatggagtctcactctgttgcccaggctggagtgcactggtgcgatctcagctcactgcaacctccatctcccagttcaagtgattctcctgcctcagcctcttgagtagctgggactacaggcatgcaccac
cactacaggcgtgtgccaccacacctggctaatttttgtatttttagtagagatgaggttttgccatgttggccaggctggtctcgaactcctgacctcaggtgatcctcctgctttggcctcccaaagACttttttttttttt--aatatagagacaagttctcagtatgttgcccaggctggtctcaaactcctgagctcaagtgatcctcccacctcagcttcccaaagtgctgggactGActggatgcagtggctcatgcttgtaaactcagcactttgggaggccaaggtgggagggtcgcttgagcccaggagttcaagaccagactgggtgatataacAcaatagtaaacttcaacaggagagagaatctgtaaacttgaatatagatcttctgaaattatccagtcagaggacaaagaaaaaaagaataaaaaagagaaaagaaggctgggcgtggtggctcaagcctgtaatcccaacactttgggaggctgaggcaggcagattaagaggtcaggagttcaagaccagcctggccaacatgacaaaaccccatctctactaaaaatacaaaaattagccgggtgtggtggcacacacctgtagtcccagctacttgggaggctgaggcaggagaatcgctttaacccaggaggcggaggttggagtgcaatgtgagccgagaccacacattgcactccagcctgggtgacagagcatgagtctgtctcaaaaaaaaaaaaagaaagaaagaaaaaaaagagacagagaaaagaaagccaacaagacaccattaggcaaaccattgtcaggttatgggagtttgagaaggaaagtagagaaaggagaagaaagcttatttaaggaatggctgaaaactgcctaaatcatgggaaagatttagacatctaaatccatgaagcttaaagattcctaaagaggttcaaaccaaatagatattcaccaagtcacaatataatca
aatattcaaaagttaaagaaactttgcaggtcaggacagaatcgaataatacattcaaagtgctgaaagaaaaaaactgccagcaactaatattatgtctgacaaagctgtccttcagaaagaaaaaagaaataacgtgtttcctcgacaaacaaagctgagggcattcaggactactaggtctaccttaaaaaaatgcttaacggagtttttcaagtaaaaatgaaTGATGTTgggagcggtggctcatgcctgtaatcccattttgggaggctgaggtgggtggatcacctgaggtcgggaggtcaagaccagcctggccaacatggcaaaaccccacctccagtaaaaatacaaaaaattagccaggtatgaaggccactgacatcgtgccactgcactccagcctgggtgacaagagtcaaactacatttcaaaaacaaaaaataaaacaaaccaaaaaaacaaaacttgagGCCTGGTCTTCTGCTCCTCTCCAACCCCCCCTTCTCTGGGCCCAAGCCACCTTGGCTGAGGAGGGGGCGAGGAGGTGTGAGCCCCTGCCAGGAACCCCCTGCCCGGACCAAGTACTCGGCCCCCAGGCCTGCATTCAGTGAGGCCTCCCGTGGCATCAGCATGTTCGTGTGGAGGAATGTGGAAGGTCACTCTGCGGCCGTGTTCCCCTGGTACTCCATCCCCTTCCTCACCCCTCCCTGCAGCCACACGAGGCC-AGCAACCTGCCAGTCACTCAGTGGCCTCCAACCAGAGAAAGCAACCTGCCAAGTTGGCAGCTGTTGCTCATGAGCATCCACCAGGTGGGACAGGGAGTGTTGACCCTGGGCGGCCCCCTGGAGCCACCTGCCTTGAAAGCCCAGGGCCCGCAACCCCACACACTTTGGGGGTGGTGGAACCTGGTAAAAGCTCACCTCCCACCATGGAGGAGGAGCCCTGAGCCCCTCAGGGGAGTCCCTGCTGGACAGTGAGACAG
AGAATGACCATGATGATGCTTTCCTCTCCATCATATCTCCTGACACCCAGTTGCCTCTACCACTCAGATGATGTCAGGCCCAGTCCCTCAGTGCCCTGCGCAAGGAACAGGACTCATCTTCTGAGAAGGATGGATGCAGCCCCAACAAATGGGACAAGGACCACATCCGGTGGCCCATGAGTGGCGGTCATGATCTTCAGCAAGCGGCACCAGGCCCTGGCGGGGCGCACCAGGGTCACCCCAACCAGGATAACTGGACCATCAGCCAGATGCTGAGTGAGCGGTGGTACACCCTGGGGCCCAATGAGATGCAGAAATACCACGACCTGGCCTTCCAGGTGAAGGTGGCCCACTTGCAACAAGGACCGAAAGAAGTCCAGCTCAGAGGCCAAGCCCACAAGCCAGGGGCTAGCACGAGTGTAACAAGGGCTCATGGGAGCAGAGCATATCAGAGACGGGCACTGCCACTGCCCCTAGGGTGTCCTCTGAACTCCTGTCAGTTGCAGCCCAAACACTCCAGAGCTCGGATACCAAGGAGCAGCTTCTGTGGGGCAGAACGGCTGCACACAGTCAGGGAACCTGGCTCAGCCTGGCCCAAGCCTTCTCCCACAGCGGGGTACACAGCCTGGATGGCATGGAAATAGACCATCAGGCACTACGGGAACTGACACAGGTGGTGTCTGGCACTGCATCATACTCTGGCCCAAAGCCTTCTACTCAGTATGGAGCTCCAGGCCACTTTGCAGCCCCTGGTGAGGGAGGTGATCAGTGGGCAGCCCTGCTGCTGCCCACCTGAGCTGCTCATTCCCAGCACATGGCCAGTGAGGACATAGCGAGTGACCAGGAGCACACGGTCATCCATGAGGAGGAGGGGGTGATGATGTCATTGCTGATGATGGCTTTAGCACCACTGACACCGATCTCAAGTTCAAGGAGTGGGTGACCGACTGAGAGTGGGAACAACTCTGCGGAGGAGCCAGAGGGCAACA
AGGGCTTTGGTGGGAAGGTATTTGCACCTGTCATTCCTTCCTCCTTTACTCCTGCCACCCCTTGCTGGATCCTGAGTCCCCAGGGTCCCCCGATCCACCTGCAGCTTTTGGCAAAGTCTATGGTCCCACTCTGTCCTCCTCCTACACATACTCGGATGCTTCCTCCTCAACCTTGGCACCCACCTCCTTCTTACTGGGCCCAGGAGCCTTCAAAGCCCAGGAGTCTGGTCAAGGCAGCAGAGCGGGCCCCCTACGGCCCCTACCCCTGGGGATGGGGGCCCAGGGACGCCTTCCAAGGTGACCTGTTTCCTCCCAATGGATCCTGCCACCTTCTGAAAGAAGGTGCAAGAGACCTGAAAGTGTGGGCGACCTGGAGCTACCAGGCTCCTCAGTCATCAGGGTCCCTCCCAACACTAAGGCTTTCCTAGGCAGGAGCTGAGCTGAGCCACCCGGGGGGCAGAGCCTGAAGAGAAACTGACTGGGCTTTCGGGGTCGGGGCAGAGGGAACCCCACGGGCATGGATCCCACACTGAAGGACCCCACCATGCCCAAATGCAAGATGAGAAGATGCTCCAGCTGCAGTCCAAAGCCCGACACCCCCAACTGTGCCATGTGTGATGGGGACAGCTTCCCCTTTGCCTGTACAGGTGGAGAAGCCGAGGACAGGCTCAGGGAACCGGAGACCGAGAAGGCGCTGTACTCTTCACTGCACGTGCCCTGGACCAGTGCCAGCCCTGATCAAGCAGCTCTTCCAGGCCCACTTCTTCTTCCTGTCCACTAGGCCACAGCCGCCCTCCAGGCCCACTATGCACACATCTTCCCCTCCAAGGTTTGTTGTGCCCCTGCCCTGACTCCCAGCCCTGTGGGGGTCCTGACCGCACCTCACCTGGCTCAGACTCTTGACGCTGCCCTGGCTGCCCCACCACTGCCTCTGCCCGAGAGTCACGTGAGGCTGAGAGTAGGGGCAGGGGCAGCAGTAGTGCCAGTTG
GGGGGCGGTCCAGTGGGAGGAGCCTCAGCCTCGTGGGCTGCTCCGTGGGACTGATGACTGCATGATCTTCTGGGCACCTGACGGATCTTCAACTGCAGGTGAAACGGATGCTGGTGGTGGGTGCAGGGCCGCTGGGAGCTGCTGCATGGTTCCCAGAGGCTGGACTGGGGCAGGTGCCAACTGAAGCTGCTGGGGCAGCATGGGCAGGATGTTCTGCACACAAACCTTGGAGAAGAAGATGTGTGCATAGCGGGTCCACTGCTGCTGCCCCTGCCCTGACTCCAAGCCCTGCCTGACCCCACCTCAACCTGCTCAGGCTCTGGCGCAACCCTGGCTGCCCTGCCACTGCCTCTGCCCCAGAGTTGGGGCCTTGACAGCCTGGTTGGAAGGGGACACCCCAGCCCTGCCTCAACACCTGGGGGTCTCCATAACTACCACAGGCAGGTGGGCAACCCCAAAGATCCCAGGACTCACAGTACCCCCTGAGAACATGGACAGTATGTGGGGGTAGCAATGGAGGGCAGGATGGTTATCTTCTCCCAGGTAAAGCCATTTAATCCTTTCAGTTTGGGATGGAGTAAGGCCTGCTTCtttttttttttttttttttttttttttttttttttgagaccgagtcttgctctgtcgcccaggctggagtgcagtggtgcgatcttggctcactgcaacctcttcccgccgggttcacgccattctcctgcctcagccttccgagtagctaggattacaggtgcacgctaccacgtccggctaatttttgtatttttagtacagacggggcttcatcatcttggccaggctgatttcgatctcctgacatcgtgatctgcctgcctccccctcccaaagtgctgggattacaggtgtgagccaccacgcctggccAAGGCCTGCTCCTCTTATCTATACCCCCTACCCCTGCAGCTGTGCCGGGGGGAAAGCTGGGCAGTTTCCCTCCTCCAAGCCCC
TGTACATACCATGAATTGTGGGACCTTCAGAGCTTTTCACTTTTCGGAAAATAGCTCCTGCTGGGGCTACAAGATGGAGTGTGAAGAGGGCCTTGGGCCACAGGGAGGCGCCTGTGGACTAGGGGGAGTTCATGCACCCCTTCTTTCCCCAGAGGGGCTGGACTCAGGTGAGTATGGGGGTGGGGGCTCCTGCACTTCGACACAGGCAGTGGGAGGGTTTTCTCCCCATTCCCTCTGCACTCCCAACTTGAGCTATACTTTTTAAGAAAGTGATTCACCCTGCCTTTGCCCCCTTCCCCAGAACAGAACACGTTGATCATGGGCGATATTTTTCATTGTGCCAAAAATTTGCCATGACCGTCATTAAACCTGTTTAACACCAAATAATAAGGAAAATAAAATAAAAAATT
+
+a score=55912
+s hg18.chr1 124729 624 + 247249719 CGGGCTTGGCGCAGAAACTCACTCCAAATAAATTACCTACCAAAACATTTACATAATGGTGGAAATATTCCAAAATTCAATATTTTGGGATTTATACACAAAAGATAAACAAATTAGAGGCCAAGAGGCTGCCGGAAGGGAAAAACAGGGCCTGGAATGGCCGACGTGAGGAATGAGCTGGGCCTAAAGAGGCCACTGGCAGGCAGGAGCTGGACCTGCCGAAGTGGCCGAAAGGCAGGAGCTTTGGACTGGGGAGGCCGCAGTGAGGCGAGAGCTAGCTGGGCGTGGAGAGTCCGCTGTGAGGCCGAGGCCGAGGCTGGGCCCGTGCAGGCCTTCGAGACGCAGGAGGCCGGGCCTGCAAAGGCCGACTGGAGATCAAGTTCTGCGCCTGAAGAGGCTGCCAAAAGTCAAAAGCGGGGCCTGGGAAGGCCGCCGAGAGCCATGAGCTGGGCTGGGCCGAAAGAGGCCACTGGGAGGCAGGAGGAGCTGGGCCTGGAGAGGCTGACTCGAGGAAGTTTTGCACCTGGAGAGGCCGTCGAGAGGACGGAGCTGGGCCCAGGGAGGCCGACTTGCTGCTCTTCCAGGCCCACTTCCAGGCCGACTTGAGGACGACTTGGGCCTGCA
+s panTro2.chr1_random 7175462 620 + 9420409 CGGGCATGGTGCAGAAACTCACTCCAAATAAATTACCTACCAAAA----TATATAATGGTGGAAATATTCCAAAATTCAATATTTTGGGATTTATACACAAAAGATAAACAAATTAGAGGTCAAGAGGCTGCCAGAAGGGGAAAACGGGGCCTGGAAAGGCCGTTGTGAGGAATGAGCTGGGCCTAAAGAGGCCACTGGCAGGCAGTAGCTGGACCTGCCGAAGTGGCCGAAAGGCAGGAGCTTTGGACTGGGGAGGCCGCAGTGAGGCGAGAGCTAGCTGGGCCTGGAGAGTCCACTGTGAGGCCGAGGCCGAGGCCGGGCCCGTGCAGGCCTTCGAGAGGCAGGAGGCCGGGCCTGCAAAGGCCGACTGGAGATCAAGTTCTGCGCCTGAAGAGGCTGCCAAAAGTCAAAAGAGGGGCCTGGGAAGGCCGCCAAGAGCCATGAGCTGGGCTGGGCCAAAAGAGGCCACTGGGAGGCAGGAGGAGCTGGGCCTGGAGAGGCTGACTCGAGGAAGTTTTGCACCTGGAGAGGCCGCCAAGAGGACGGAGCTGGGCCCGGGGAGGCCGACTTGCTGCTCTTCCAGGCCCACTTCCAGGCCGACTTGAGGACGACTTGGGCCTGCA
+
+a score=3198
+s hg18.chr1 125369 47 + 247249719 TGGAGCTAAGCCTGGAGAGACTGACTTCGGGACGATTTGGGCCTGCG
+s panTro2.chr1 203149100 47 + 229974691 TGGAGCTGGGCCTCGAGAGGCCAACTTCAGGAGGATTTGGGCCTGCA
+
+a score=10475
+s hg18.chr1 125416 119 + 247249719 GAGGCCGCCGGGAGGCCCAAGCTGGGCCTAGAGGAGCCCACCGACCGGAGGCCATTTGGGGCCTGCAGATGTCATCGGAGGGCCAGGAGCTGAGCCTGGAGAGGCCACCGCGAGGCCTG
+s panTro2.chr1_random 7176082 118 + 9420409 GAGGCCGCCGGGAGGCCCAAGCTGGGCCTAGAGGAGCCCACCTACCGGAGGCCGTTTGGGGCCTGCAGATGCCATCGGAGGG-CAGGAGCTGAGCCTGGAGAGGCCACCGTGAGGCCTG
+
+a score=7657
+s hg18.chr1 125535 79 + 247249719 AGCTGGGCCTGGGGAGCTTGGCTTAGGGAAGTTGTGGGCCTACCAGGGCCGCTGGGAGCTGGGCAGGAGCTGAGTCCAA
+s panTro2.chr1 224035422 79 + 229974691 AGCTGGGCCTGGGGAGCTTGGCTTAGGGAAGTTGTGGGCCTACCAGGGCCGCTGGGAGCTGGGCAGGAGCTGAGTCCAA
+
+a score=51195
+s hg18.chr1 125614 592 + 247249719 AGACGTTGTTGGGACCTGGAGTCGGGCCAGAGTCCGGCCTGGAGATGCAGCCGGGAGGAAGAGCTGGGCCCGGAGGGGGCGCCGGGAGGCTGCAAGTGGGTCTGAGAGGCCAACTTGAGGAGGCCTGGCCTCTGCCTCCCGCATTGCCCAGCTGTTCCTCCTGGCTGCATCTCCCACCTCCCAGCAAACAAGCTCTTTTGGCTCAGCTCCCGCCTGCGTTTGTAGACCCCAAAGTTTCTGCAACCAAGCTCTTCAGACCCACATCCCTTCTCCCAGTGACTGAACAGTCCCAGCTCCGGCTGGAGAAGGGTGTCTGCAGA-CCCCGCTGTTGCCTCCCAGGGGAGTCTCCAGGCCCAGCTCTCGCCCCACCGCGACCTCCCAGGCCCAAGTCCCTGCCTACCTCCCAGCAGCCCGAGTGCGATCCTGTTCCTCCCTCACGGTGGCCTGTTGAGGCAGGGGGTCACGCTGACCTCTGTCCGCGTGGGAGGGGCCGGTGTGAGGCAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGACCTCTGTCCGCGTGGGAGGGGCCGGT
+s panTro2.chr1_random 7176200 591 + 9420409 AGACGTTGTTGGGACCTGGAGTCAGCCCAGAGTCAGGCCTGGAGATGCAGCCGGGAGGAAGAGCTGGGCCCGGAGAGGACGCCGGGAGGCTGCAAGTGGGTCTGAGAGGCCAACTTGAGGAGGCCTGCCCTCCGCCTCCCGCATGGCCCAGCTGTTCCTCCTGGCTGCATCTCCCGCCTCCCAGCAAACAAGCTCTTTTGGCTCAGCTCCCGCCTGCGTTTGTAGACCCCGAAGTTTCTGCAACCAAGCTCTTCAGACCCACATCCCTTCTCCCAGTGACTGAACAGTCCCAGCTCCGGCGGGAGAAGGGCGTCTGCAGACCCCCACTGTTGCCTCCCAGGGGAGTCTCCAGGCCCAGCTCTCGCCCCATCGCGACCTCCCGGGCCCAAGTCCCTGCCTACCTCCCAGCAGCCCGCGTGCGACCCTGCCCCTCCCTCACGGTGGCCTGTTGAGGCAGGGGCTCAGGCTGACCTCTGTCAGCATGGGAGGGGCCGGTGTGAGGCAAGGGCTCCCGCGGAC--CTGTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGTCCTCTCTCAGCGTGGGAGGGGCCGGT
+
+a score=16633
+s hg18.chr1 126206 202 + 247249719 GTGAGGCAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGACCTCTGTCCGCGTGGGAGGGGCTGGTGTGAGGCAAGGGCTCAGGCTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGACCTCTGTCCGCGTGGGAGGGGCCGGTGTGAGACA
+s panTro2.chr1 203152230 202 + 229974691 GTGAGGCAAGAGCTCACACTGAACTCTCTCTCCGTGGGAGGGGCCGGTGTGAGGCAAGAGGCTCACGCTGTCCTCTCTCGGCGTGGGAGGGGCCGGTGTGAAGCAAGGGCTCACACTGACCTCTCTCGGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGACCTCTGTCAGTGTGGTAGGGGCCGGTGTGAGGCA
+
+a score=11076
+s hg18.chr1 126408 188 + 247249719 AGGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCAGG-------------------------------------------------------------------------------------------------CTGACCTCTGTCCGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCAGGCTGACCTCTGT-----------------------------------------------CCGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCAGGCTGACCTCTGTCCGCGTGGGAGGGGCCGGG
+s panTro2.chr1 203155717 332 + 229974691 AGGGGCTCACGCTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCAGGCTGACCTCCCTCAGTGTGGGAGGGGCCGGTGTGAGTCAGGGCCTCAGGCTGACCTCTCTCAGTGTGGGAGGGGCCGGTGTGAGTCTATGGGCTCAGCCTGACCTCTGTCAGCCTGGGAGGGGCCGGTGTGAGGCTAGGGGCTCAGGCTAACCTCTGTCAGCCTGTGAGGGGCCTGTGTGAGGCAAGGGGCTCAGGCTGTCCTCTCAGCATGGGAGGGTCCGGTGTGAGGCAAGGGGCTCAGGCTGACCTCTCTCAGCGTGGGAGGGGCCGGT
+
+a score=5436
+s hg18.chr1 126596 60 + 247249719 GTGAGGCAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGG
+s panTro2.chr1_random 7176791 60 + 9420409 GTGAGGCAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGAGCCAGTGTGAGGCAGGGG
+
+a score=18226
+s hg18.chr1 126656 239 + 247249719 GCTCGGGCTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCGGGCTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCGGGCTGACCTCTGTCCGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCGGGCTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGACCTCTGTCCGCGTGGGAGGGGCCGGTGTGAGG
+s panTro2.chr1 203156110 239 + 229974691 GCTCAGGCTGACCTATGTCAGCATGGGAGGGGCCTGTGTGAGGCAAGGGGCTCAGGCTGAACTCTGTCAGCGTGGAAGGGGCCGATGTGAGGCAAGGGGCTCAGGCTGACCTCTGTCAGCGAGCGAGGGGCCTGTGTGAGTCTATGGGCTCCCGCTGACCTCTGTCAGCCTGGGAGGGGCCGGTGTGAGGCTAGGGGCTCAGGCTGACCTTTGTCAGCGTGGGAGGGGCCGGTGTGAGG
+
+a score=12466
+s hg18.chr1 126895 150 + 247249719 CAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGACAAGGGGCTCACGCTGACCTCTGTCCACGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACACTGACCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAG
+s panTro2.chr1 203157314 149 + 229974691 CAAGGGCTCACACTGATCTCTCTCAGCGTGGGAGGGGCCGGTGTGAGGCAAGGGGCTCACGCTGATCTCTCTCGGAGTGGGAGGGGCCGGTGTGAGGCAAGGG-CTCACGCTGACCTCTCTCAGCGTGGGAGGGGCTAGTGTGAGGCAAG
+
+a score=2383
+s hg18.chr1 127045 28 + 247249719 GGGCTCACGCTGACCTCTGTCCGCGTGG
+s panTro2.chr1 229694308 28 - 229974691 GGGCTTACGCTGACCTCTGTCAGCGTGG
+
+a score=78315
+s hg18.chr1 127073 855 + 247249719 GAGGGGCCGGTGTGAGGCAAGGGCTCACACTGACCTCTCTCAGCGTGGGAGGAGCCAGTGTGAGGCAGGGGCTCACGCCTCTGGGCAGGGTGCCAGAGGCATGAGTTGGGCATCAACAGGCCACCGTGAGGGAGGAGCTGGGCCGCACGCGGGCTGCTGGGAGGCAGGCAGGGACTTGGCCCCGGGAGGCCGCCGTGGGGGCAAGAGCTGGGCCTGGAGAGGCCCCTGGGAGGCAAGGGCGGGGCCTGCAGAGGCTGTTCTCCAACCAGTGCTAGAACTGTACAGGCCACCAGGAGGCAGGAGGTGGGCCCTCAGAGCTTGGCTGGAGAAAGTTCGGGGCCTACAAAGGCGGTTGGGAGCTGGGCAGGAGTTGAGCCAAAAGAGCTTGCTTACTTGCTGGGAGGCAGGGCCGGGAGAGCCCGACTTCAGGACAACTTGGGCCTGCGGCGGTCGCCGGGAGGCCCAACCTTGGCGTGGAGGAGCCCACCGACCGGAGACCATTTGGGGCCTGGAGATGCCATCGGAGGGCAGGAGCTCATCCTGGAGAGGCCACCGTGAGGCCTGACCTGGGCCTGGGGAGCTTGGCTTGAGGAAGCTGTGGACCGACCAAGGCCGCCAGGAGATGGGTAGGCACTGAGTCCAAAGAGGTTGTTGAGAGGCAGGAATCGGGCCTGGAGACCCAACCAGGAAGAAGAGCTGGGCCCGGAGAGAACGCCCGGAGGGTGCAAGTGGGTCTGGAGAGGCCGACTTGAGGAGGTTCTGGGCCCGGAGAGGCCGCTGGAAGGGAAAAACTGGGCCTGGAAAGGCCGTTGTCAGGAATGAGCCCCATGGGCCTGAAGAGGCCACTGGCAGGCG
+s panTro2.chr1 274511 855 + 229974691 GAGGGGCCGGTGTGAGCTAAGAGCTCACACTGACCTCTCTCAGCGTGGGAGGATCCAGTGTGAGGCAGGGGCTCACGCCTCTGGGCAGGGTGCCTGAGGCATGAGTTGGGCATCAACAGGCCACCGTGAGGGAGGAGCTGGGCCACACGCGGGCTGCTGGGAGGCAGGCAGAGACTTGGCCCCGGGAGGCCGCCGTGGGGGCAAGAGCTGGGCCTGGAGAGGCCCCTGGGAGGCAAGGGTGGGGCCTGCAGAGGCTGTTCTCCAACCAGTGCTAGGCCTGTACAGGCCACCAGGAAGCAGGAAGTGGGCCCTCAGAGCTTGGCTGGAGAAAGTTCGGGGCCTACAAAGGCGGTTGGGAGGTGGGCAGGAGTTGAGCCAAAAGAGCTTGCTTACTTGCTGGGAGGCAGGGCCGGGAGAGGCCGACTTCAGGACAACTTGGGCCTGCGGCGGTCGCCGGGAGGCCCAAGCTTGGCGTGGAGGAGCCCACCGACCAGAGACCATTTGGGGCCTGGAGATGCCATCGGAGGACAGGAGCTCATCCTGGAGAGGCCACTGTGAGGCCTGACCTGGGCCTGGGGAGCTTGGCTTGAGGAAGCTGTGGGCCGACCAAGGCCGCCAGGAGATGGGTAGGCACTGAGTCCAAAGAGGTTGTTGAGAGGCAGGAGTCGGGCCTGGAGACGCAACCAGGAAGAAGAGCTGGGCCCAGAGAGGACGCCCGGAGGGGGCAAGTGGGTCTGGAGAGGCCGACTTGAGGAGGTTCTGGGCCCGGAGAGGACGCCGGAAGGGAAAAACTGGGCCTGGAAAGGCCGTTGTGAGGAATGAGCCCCATGGGCCTGAAGAGGCCACTGGCAGGTG
+
+a score=65540
+s hg18.chr1 127928 702 + 247249719 GGAGCTGGGCCTGCCGAAGCGGCCGAGAGGCAGGAGCTTTGGACTCGGGAGGCCGCAGTGAAGCAACAGCTAGCTGGGCGTGGAGAGTCCGCTGTGAGGCAGAGGCTGGGCCTGTGCAGGCCTTCGGGAGGCAGGAGGCTGGGCCTTGTCGAGGCCTGCAGAGGCCACCGAAAGTCAAAAGCGGGGCTTGGGAAGGCCGCCGGGAGGCATGAGCTGGGCTGGGCCGAAAGAGGCCACTGGGAGGCAGGAGGAGCTGGGCCTGGAGAGGCTGCCGAAAGGCAGGAGCTTCACCTGAGGATGCCACAGTGAGACACCATCTGGGTCTGGAGGGTCCACTGTGAGGCAGAGGCTGACCTGTAGAGTCCGACAGTAGACAGAAGTTGGGCAAAAGCCTGATTTGAGGAAGTTTTGGGCTTCAAGAGTCAGCCACGAGGCAGGCACTAGGCCTGGAAATGGCCTCACAGTCATAAGTTGGGCCTAAATGGGCCACTGTGAGGGAGGAGCTGTGCCTGTTGAGGCTGCTGGCAGGCAGGCAGAAATTTGGCCTGGGGCAGCTGCCATGAGGCAAGAGCTGGGCCTGGAAAAAGCCCCTGGGAGGCAAGAGCAGGGCCTGCAGAGGCTGTTCTCAAGTCAAAGCTGGGCCTGTTGATGCCACCGGGAAGCAGAAGGTGGGCCTGGAGAGTTTGACTTGAGGAAGTTTTG
+s panTro2.chr1 224036698 702 + 229974691 GGAGCTGGGCCTGCCGAAGCGGCCGAGAGGCAGGAGCTTTGGACTTGGGAGGCCGCAGTGAGGCGACAGCTAGCTGGGCGTGGAGAGTCCGCTGTGAGGCAGAGGCTGGGCCTGTGCAGGCCTTCGGGAGGCAGGAGGCTGGGCCTTGTCGAGGCCTGCAGAGGCCACCGAAAGTCAAAAGCGGGGCTTGGGAAGGCCGCCGGGAGGCATGAGCTGGGCTGGGCCGAAAGAGGCCACTGGGAGGCAGGAGGAGCTGGGCCTGGAGAGGCTGCCGAAAGGCAGGAGCTTCGCCTGAGGATGCCACAGTGAGACACCATCTGGGTCTGGAGGCTCCACTGTGAGGCAGAGGCTGGCCTGTAGAGTCCGACAGTAGACAAAAGTTGGGCAAAAGGCTGATTTGAGGAAGTTTTGGGCTTCAAGAGTCAGCCACAAGGCAGGCACTAGGCCTGGAAATGGCCTCACAGTCATGAGTTGGGCCTAAATGGGCCAGTGTGAGGGAGGAGCTGTGCCTGTTGAGGCTGCTGGCAGGCAGGCAGAAATTTGGCCTGGGGCAGCTGCCATGAGGCAAGAGCTGGGCCTGGAAAAAGCCCCTGGGAGGCAAGAGCAGGGCCTGCAGAGGCTGTTCTCAAGTCAAAGCTGGGCCTGTTGATGCCACCGGGAAGCAGAAGGTGGGCCTGGAGAGTTTGAATCCAGGAAGTTTTG
+
+a score=42031
+s hg18.chr1 128630 478 + 247249719 GGCCTACATTGGCCGCCATTAGCTGGACAGGAACTGGGCCAAAAAAGGCTGTTGTGAGGCAGCAGTTGTGCCTGTAGACCCAGCCAAGAGGAAGAGGTGGGCCTGGAGAAGCCCCCATGAGGCAGAGGTTGGGCCTGTAGACGCTGACAGGAGGCAGGAGCTGGGCCTGGACAGGTCAACTTGAGGAGATTTTGGGCCTTCATAGGCCACCAGGAGGCAGCAGTTGGGACTAGAGAGTCTGACTTGAGTAAGTTTTGGGCCCGGAGATGATGTCCTGGGACAGGAGTTGGCCGTGGAGAGGCCACCGTGAGGCATAAGCTGGATGTAGAGAGGCCAGTGTGAGGCAAGACCTGGGCCTGTCTAGGCTGCTGGGAGACAGGCAGGAATCTGGCCAGGGAAGGTTGCCATGAGACAAAAGTTGGGCCTGGAAAGGCCCTTGTGAAGCATGAGCTTGGCCTAAAGAGGCCACTGGGTGGCA
+s panTro2.chr1_random 7178181 477 + 9420409 GGCNTACATTGGC-GCCATGAGCTGGACAGGANCTGGGCCAAAAAAGGCTGTTGTGAGGCAGCAGTTGTGCCTGTAGACCCAGCCAGAGANNAGAGTNGGGCCTGGAGAAGCCCCCATGAGGCAGAGGTTGAGCCTGTAGACGCTAAAAGGAGGCAGGAGGTGGGCCTGGAGAGGTCAACTTGAGGAGATTTTGGGCCTTCATAGGCCACCAGGAGGCAGCAGTTGGGACTAGAGAGTCTGACGTGAGTAAGTTTTGGGCCCGGAGATGACGTCCTGGGACAGGAGTTGGGCCTGGAGAGGCCACCGTGAGGCATAAGCTGGATGTGGAGAGGCCAGTGTGAGGCAAGACCTGGGCCTGTCTAGGCTGCTGGGAGACAGGCAGGAATCTGGCCAGGGAAGGTTGCCATGAGAGAAAAGTTGGGCCTGGAAAGGCCCTTGTGAAGCATGAGCTTGGCCTAAAGAGGCCACTGGGTGGCA
+
+a score=105363
+s hg18.chr1 129108 1151 + 247249719 GGAGCTGGGTGTGTAGAAGCTGCTGAAAGGTTGGGAGCTTGGCTTGGGGGGTCCACAGTGAGGTAGAAGCTGGGCGTGAAGAATCTGCTGTGAGGCAGACGTTGGGACTGTAGAGGCTGACGGGAGGCAGAGGCTGGGCCTGGAGGGGCCACCAAGATGCAGGAGCTGGGCCTGGAGAGGCTGCAAAGAAGCATGAGCTGGGCCTGGTGAGGTCAACTTGAGAAAGTTCAGGGCCTGGAGAGAAGGCTGGGAGGCAGGAGCTGGGTCTAAAGAGGCCATTGTAACGATGGAGCTGTGCCTGTGGAGGCTGTTGTGAGGCAGTAGCCTCATCTGCGGAGGCTGCCGTGACGTAGGGTATGGGCCTAAATAGGCCATTGAGAGTCATGAGCTTGGTCTGTAGAGGCTGACTGGAGAAAGTTCTGGGCCTGGAGAGGCTGCCGGGAGGTAGGAGCTGGGCCAAAAgatgtaagcacatttgcatttattaggcactttatttccattattacactgtaatatataataaaataattatggaactcaccataatgtagaatcagtgggcgtgttaagcttgttttcctgcaactggatgttcccacctgagcgtgatgggagaaagtaacagatcaataggtattagattctcataaggacagcgcaacctcgatccctcacatgcacggttcacaacagggtgcgttctcctatgagaatctaatgctgctgctcatctgagaaggtggagctcaggcgggaatgtgagcaaaggggagtggctgtaaatacagacgaagcttccctcactccctcactcgacaccgctcacctcctgctgtgtggctccttgcggctccatggctcaggggttggggacccctgCTCAAGTGCATCCAAAACGACCCTTCCCACACCAGTCTTCACAGTGGTCAAGGGCAGCAACCACTTAG
CTCCCAAGGCATGTGCCTCAGCTGGCATTTCGTCACAATCAACAGTAAGTGGTAGCTTGAGTCACTGTGAGGTCACCTACTGGAAATCACCAGCATCCCATTTCCCACTGGCAAAGAGCTCAGCACTGCCCCCTGGGAAACCAAACCTATGCCCAAATCCCATCTGTGTGGGTTTACCTCCTGGGACCCTTCCTAACATAT
+s panTro2.chr1 275366 1150 + 229974691 GGAGCTGCGTGTGTAGAAGCTGCTGAAAGGTTGGGAGCTTGGCTTGGGGGGTCCACAGTGAGGCAGATGCTGGGCGTGAAGAATCTGCTGTGAGGCAGATGTTGGGACTGTAGAGGCCGACGGGAGGCAGAGGCTGGGCCTGGAGGGGCCACCAAGATGCAGGAGCTGGGCCTGGAGAGGCTGCAAAGGAGCATGAACTGGGCCTGGTGAGGTCGACTTGAGAAAGTTCAGGGCCTGGAGAGAAGGCTGGGAGGCAGGAGCTGGGTCTAAGGAGGCCATTGTAACGATGGAGCTGTGCCTGTGGAGGCTGTTGTGAGGCAGTAGCCTCATCTGCAGAGACTGCAGTGACGTAGGGTATGGGCCTAAATAGGCCATTGTGAGTCATGAGTTTGGTCTGTAGAGGCTGACTGGAGAAAGTTCTGGGCCTGGAGAGGCTGCCGGGAGGTAGGAGCTGGGCCAAAAgatgtaagcacatttgcatttattaggcactttatttccattattacactgtaatatataataaaataattatagaactcaccataatgtagaatcagtgggcgtgttaagcttgttttcctgcaactggttgttcccacctgagcgtgatgggagaaagtgacagatcaataggtattagattctcataaggacagcgcaacctagatccctcacatgcacggttcacaacagggtgcgttctcctataagaatctaatgctgctgctcatctgagaaggtggagctcaggcaggaatgtgagcaaaggggaatggctgtaaatacagacgaagcttccctcactccctcactcgacaccgctcacctcctgctgtgtggctccttgcggctccatggctcaggggttggggacccc-GCTCAAGTGCATCCAAAATGACCCTTCCCACACCAGTCTCCACAGTGGTCAAGGGCAGCAACCACTTAG
CTCCCTAGGCATGTGCCTCAGCTGGCATTTCGTCACAATCAACAGTAAGTGGTAGCTTGAGTCACTGTGAGGTCACCTACTGGAAATCACCAGCATCCCATTTCCCACTGGCAAAGAGCTCAGCGCTGCACCCTGGGAAACCAAACCTATGGCCAAATCCCATCTGTGTGGGTTTATCTCCTGGGACCCTTCCTAACATAT
+
+a score=1144609
+s hg18.chr1 130272 12488 + 247249719 tacttgagaggctgaggtgagacaatcgatttagcccaggagtttgagatcagcctggacgacataactaaatctcatctctaCAaggacgaggtgggaggatcacttgagcccaggaatttgtggccagcctgggcaacaaaagaagaccccatctggccaacatggccaacctggccaccacggtgaaactctgactctacaaaaatgatctgggcatgggtgacatgcgtgtgtagtcctagctacttgggaggttgagatgggaggattgcttgatctcagaaggccaaagctatagtgagctatgatcacatcactgcactccagcctggatggcacaggaagattctgtctcaaaaaaaagaaaagaaatatatatttaatctctgtccctggttcctggcacagagcttctaaagctcttacaaagacctcagtgatagatgtgacaggagcatcttttgttttaatatttggtcttggtcccaggtttctaacacaagagcctctaagaactttgggatctccagcatggtaagaatgcatttggggatgttgttgagatgactgggtgactgcaagctcctaaatttcttcaagaggagggctgattaccatgcaaccacatggtaagaggcttggaactttcagcctcatgcactgaactccagggggaagaggggctggagactgacttaatcaccaacagccaaaggttttatcaatcatgcttgcataataaagcctccataaacaccctgaaaggggtttgcagagctttcagggttgctggacacaggagatgctgggagggtcgcatgttcaacagagggcatgggagctctgtgcccctccgaacttaacttgccctgggtatctttctttttttt-gagacaggatcaggctcttttgtccaagctggagtgcagtggcacaa
tctcagcttactgtaacctaagcctccccagtccccagctcaaggtatcctctcatctcagcttccctagtagttggaactctaggtgcacaacaccacaccagttattattattattttttaattttttatagagacaggttttcaccatgttgcccaggctggtctcaaactcctgagtttaagcgatcctcccaccttggcctcccaaagtgctgagattacaggcatgagccactgcatccagcatgcacgtctctttcattgactgtttctgagatgtatccttcacaatgaaccagtaataggaaatgaactggccagatgtggtggctcacatctgtaatcccagcactttcagaggctgaggtgggaggatcacttgagaccaggaatttgtggccagcctggccaacacaacaagaccccatctatacaaaaaataaaagaaactagccagatgtggtggtgcaggcatgtagtctcagctactagggaggctgaggtgggagaaccactggaacccagacaatcaaggctgcaatgagctatgactgcaccattgcacaccagcctgggcaacaaaataagaccctctctctcagaaaaaaagaaaataaactgtttttctgagttccgtaaactgttctagcaaattattaaacccaagaagacagttacgggaacccccgattggtaacaggttggtcaaaagtatggtgacaacttaggacttgccattgtcatctgaagtgaggatggcctcgtgggactgagcccctaacttgtggggtctgtgctaactccaggtagtgtcagaataaagtcatgggatacccagttaatatccagagcactgaagaatctggtgtagaaactccatacgtacattcagtcggaagtgtgtgagtagagacaaacaTGGGCTTTTCTGTCACCTACCTGCTTAACTGCATAGgagaggcaatatgtggtgctcatgaacaaag
caaacattaaagtcagaccagacccaacatttgactcagtcttaatatccaggtgagcctgcgcaaatcattcattattcctaaggttttcatcactccattcataaaatggggataactgtggcacctacatgtgattctgtgagaattaacgaaatattatgcttgGGGTTATTGTGATCATTATACCTGTTCCAAACTATTTGACAAGGACAGTGATGGATGAAGACATCAAAAAATCAGAAACTGCAATGAGGTCTCTCAGGCAAAATTCCATACAAGCAAATTACTGTGTCTACAAAGCATTCCTGCCACACTTAATTCACCATTCCCTGAACAGAATATGCCATCTTCGTTGTTCAGGTCTGTACAGTGCTGGTTTCCCTTCCCGGACAGTTTGCGCTATCCCATCCCGGCCCATTCCCCATCCCTCCACCTCCCCCTTCCCTCCCCACTCTCATACAACTCTTCCTCATCTTTCAGGACTTGGCTTCAATGTCACCTTAACTGGAAGCTTCTCTCACTCTCCAGAAGAGCTTCCCATTGCACCTGATGCATGGGAAACATAATTTGATCATTTTTAAGTTACAGTCCAAATCTTTTTGTACCTGAATAACATGTTGCCCAGTCAGTCTCTCTTCCTGGATTCACAAGTCTTTCATGGTAGATCCAGCTGGAAGTGACAAAAAGACATCTTTTGACATAAAGGGATGACACAGACAGACATAAGTTCTTAAATGTCTTAAATGTTATGTGAGAATTAAACAGAATTCAAAGACTTGTGGGGAGCACTTAGGAAGTTACTGGGAATGTCATGAAGGGTTAAtttgtattttattttattttttgagacagtctcattctgtcacctaggctggagtgcagtggtgcaatcaggctcactgcagccttgaccacctgggctcaagtaatcTCACTTAATTTTTATTTGGTTTAAGAAAGTCTTGGTTGAGGgtggtggcttatgc
ctgtaatctcagcactttgggaggctgagagaggtatattacttgaggccaggagtttgagatcagactgggcaatatattaagaccctgcctctaccaaaaaACAGAGTGAATGTgtggaagacaatttttccacagactgggaatgagggaataatttcaggatgattcaagtgcattacatatattgtgcactttatttctattattactacatagtaatatataatgaaatgattctacaactcactataacgtagactcagtgggatctctgagcttgttttcctgcaactagactgtccatctggggtgatgggagacagtaacagaatatcaggcattagattctcataaggagtacacaacctagatccctcgcatgcacacttcacaacagagtttgtgctcctgtgagaatctaatgctgctgctgatctgacaggacatggagctcaggtggtcatgcaagcgatgggaggggctagaaatacagatgaagtttcccttcactcgcctgctgctcacctccagctctgtggccctgtGGTTGGAGACCGCTGCTCAAGTGCATTTGAAAGGAACCAACCCACGCCATTCTTCAGAGTCATCTTTACTGCTGCAGTGGTCAACTTGTAGCACCCCTAAGCTCGCAGGACATATGCTTCAACTGGCATTTCACAATCAACAGTATGTGGCAGCTTGAGTCATTGTGAGCTCACATCCTGGAAATCACCAGCATCCCATATCCCATT-GCAAGGAGCTCAGCACTGCTCCTTGGATAACCAAACCTATTCCCAAATCCCATCTGTGTGCGTCTATCTCCTGGTACCCTTCCTAGCATCAATTCTGTATTTGTAGGAGTCCAATCAGGAGACACAAACCACTCAAAAGTTTAAACTAGAATGAGCAAgatggctcacacctgtaatcccagaactctgggaggccaaggtgggtggactgctttgagctcaggagtttgaga
acagtctgggaaacatggcgaaacctcgtctctacaaaaaacacaaaaatcagctgggtgtggtggcacttacctgtaatcccagctactcgggaggctgaggcaggagaattgcttgagcctggcaggtggaggctgcagtgagcagaggttgtgccactgtactccagcctgggtgacagtgtgagacccggtatcaaaaagaaaaaaCGtatatatatatatatatatatatatatatatatatatatatatatatatgtaAATTTAATATAAAAAGTATTAATTTTggccaggcaaaatggctcatgcctgtaatcccagcactttgggaggccaaggcagacagatcacctgaggtcaggagttcgagaccagcctgaccagcacagagaaaccccatctctactaaaaatacaaaattagctgggcatggtggcacatgcctgtaatcccaactactcgggaggctgaggcaggagaattgcttgaacccagaaggtggaggttgcgctgagccgagatagcgccattgcactccagcctgggcaacaagagtgaaactccatctc---aaaaaaaaaaaaGGGTATTAATTTTTACAGAGGATCAGCACAATGAGGGACACACTAGCACAAAGTAAAGACAACTCTAGAGAATACGGAACTAGCAGAggccaggcattgtggctcatgcctgtaatcccagcaatttgggaagcctaggcaggaggatcgcttgaggccaggagttggagaccaatcagtgctaaatagtgagactctgtgtctaccaaaaaaaagagacattagccaggtgtggtggtggtgcacacccgtagttccagctacttgggagtctggggtgggagaaatcccttgagcctgggaagtctacactacagtgagccaagattgtgccactgcactccagcctgggcgacagagtgagaccctgtcttagaaagaaaaaagaaaagaaaGTGTTAA
TCCCCCTATGGGAATCTCCTCTTCTCCTGCCCTCTCTGGAACCTCACTTGTCAGTTCTTCCTCCCACTTTCCTGTATCTTTAACCTATCCCCCACTTTTAGCTCCTTCCCATCATCATTTAAATTACTCAAACTTCTTCTGTTTTAAAAACCTCTCCCTAAACTCAGGGAGAGGTCTTCTGCACACACATTGAGCCATCTGCTCTTCCCGGTGCCTTCTCTACAGCAGCCTGAGCCATGTCTCTAATCTATGAATCTCATCATGTTACTCCCCCATTTACATCACTTCTCCTTGCCTCAGGGATTAAGTCCAAACTCCTTAACAGCCCCTGCTCTGCCCTGCCTTGCAAGGCAGcctcactgcttgcccctctccatttcatctgctatggagtccaactgagcctcatctgccccttgaacgcacactctttctcctctgggagtctctgaagtgggtaatatcctctgcttataatatgcttccccttaaacctctactctcttcctagctagctttgactcctctgtcacttgtccgctttggcatcacctcctcatagaagacttctatgactcccgagATTCTCAGGAGCATGGCAGGTGAAGTGctcctcccatgaatggatggagattagggagtgtgtgttattcatgcttaattcaccagtgcttagctgagtacctggcataaaatagttactGTGGTGGCCAAAGTAATAACCCCCACCGCCACCAATTGCTCATGTCCtatgttacacagcacagttacagaggaagggggaattaagagtgcagataaaattaatgttgctcatcagctgaccttaaaacaagattatcctggagtatctaggagagcccatgtaattacaagcattctttaaaactggaagagggaggcagaaggttaagaaccagagacggTgggcacaatggctcatgcctgtaataccaatactttgggaggccagggtaggaaaatccctt
gagtgcaggagttcaaggtcagccatggcaacatactgaggtcccatctctacaacaaaataaaaacaaaattcactgagtgtcacgatgcttacctgtagtcccagctactgggaaggctgacatggtaggattgcttgagcctgggagtttgaggctataatgagccatgataggaccactgaactccatcctgagtgacagggcaaggtcctgtttctgaagaaaaaaaGGACATTGGAATCAGGGCCCTCTCCATCCTGAGGTGCCTACAAGGCATCTCTCTCTGCAAACGAGTAAACATCACCCTCCAACTCCTTACAGAGTGGAGCAACAGGAAAACTCCTTCACCTCATTTCTGTGCTGCTTGGGAGGCCTGGACAGCCCAATAACCAGCTCCTCGCTGATGAAGCAATCAGGAAATGGCTCGAGTTGAGCTAAGGAGAATTTGGATCCTTCCTTTGGTTCTCAGTAGGCAGGGTAGGggccaggcatggtggctcatacctgtaatccttgcactgtggggggccaaggtgagaggattgcttgaggccaggagctcaagaccagcctggacaacatagcaagacctgggtggcacacacctgtggtccctactacttggtaggatgaggtgggaggattgatcacttgatcccaggagtttcaggctgcagtgagccatgatcacaccactgcacttcagcctgggtgacagagccagaccatgtcacaaaaagttag------aaaaaaaaaaGAGAGAGGGAGAgagactatacacaggcaccaccacatttggctaatttttaaatattctgtagagacaaggtcttgctaggttgcccaggctagtctaaaactcctggcatcaggctgggcatggtggctcatgcttgtaatcgcagcactttgggaagctaaggcaggcaaatcacctgaagtctggagttcgagaccagcctggccaacacggtgaaactctg
actctatcaaaaatacaaaaatcagctgggcagtagtggcgtgtgcctgtagtctcacctactcgggaggctgaggcaggagaatcacttgaacctgggaggtggaggttgcagtggaccccatcactgcactccaccctgggtgacagagcgaga--ctGTc---aacaacaacaacaacaacaaaaacaaaaacaacaacaacaaaaaaaactcctggcatcaagacatcttcctgtcttagcctcccaaagccctgggattataCTGTTTCCTATAATTGAAGACACTTGTTCTTATACTGCTTTAAGGTATAAAGGAAGAAAaaaaaaacagataatggcaaatgttggtgaaggccgggcatggtggcagcctgtaattccagaacttagggaggctgaggtgggcagatcacttgaggccaggagtatgagaccagcctgggcaacatggtaaaatcccaccactacagaaaaatctaaaaattagccaggcatggtggcgtacacctgtaattttcagctacccaggaggctgagatgagagaatcacttgtgcctgggaggtcacggctgcagtgaactgtgatggcatcattgcactgcggcctgagagacagagcaagcccctatctag-aaaaaaaaaatgtcagtgaagatgtggaggaattggaacccacaaacattactggtgggaacataaaattgtgtaaccattttgTTTGGGTATTTCTTTTCTTGTCATTTTAATTGGATTTTTAAAAAATCAagacggggtttcactatcttgcccaggctggtcttgaattcacgggctcaagccatcctcctagctgagcctcctgagtagctgggattacaggtgtgagccattgcacccaactggtatagccacgttagaaaacattctggcagtttctcaaaaggctaaatgtacagtcatcctataatgcaacaatttcactcctaggcatatatcccagaaa
aataaaaatatatgtccacacaaaaacttgtacaacaatcttcatagcagcattattcataatgaccaatacatggaatacatggaaacaacccaaatatccaccaactgatgaacagataaacaaaatgcagtgtgtctctaccatggaatactgccatagaaggaatgaaatattgatacacactatgacataaaggaactttgaaaacactgtgctaagagggaaaaaaagccacaaaagatcacatattgtacaattctatttgtccagattaggcaaatctatagtgacaaaaaaattaatcaatggttgcctaaggctgggggcaaaggtaggtggggagagtaggaggtagtggctaaggggtatggatttctctatagggtaatgaaaggttctaaaagtgactgtggtgatcgatgcacagctctgtgaatattctaaaacctactgaattgcagatttcaataaataaagtgaatggtatgtgaatattttaataaagctattaTTTAAAATAATAATAATAGGGggctgggcacaggtggtcatgcctgcctgtaatcccagcactttgggaggctgaggcaggaggatcacttgaggtcaggagttttgagcccagtcggagcaacatggcaagatcccgtctctatgataaaaaattagctggacatggtggcacatgtctgtagtcccagctacttgggagactgaagtgagagaaccacttgagcccaggagtttgaggctacagtgaaccatgatcatgtcactgtactgtagcctaagcaacagagcaagacgctgtctctgaaaaggaaagaaaacaaaTGCAAGTTTTTATCACTTTGTGAGTGTAGCCAAGTTGGAGGAGAAATAGACAATAATAAAAGAGCACTGAATAATGACAGTGAGTGGCTGGTTAGGCTCAGTTGCTAGCTAAATGGCTTCTAAAAAATTCAATAAAGTTACAGCTCTGGGGA
CAGTCATGTAGTCAAAGAATGAAGGCGAAATTCATTACAATTGCCCATGGTCTTTATTTACATGCCTTCTAGTGAAAAATTCCTAAGTGCCTAAACAGCAAGTCTGCAATGATAGCAGCTGTTTATTAAAGACTACAAAAAAGAAATGGAggccgggcgtggttgttcacatctgtactccttgaattttgggaggctgaggcaggcagattgcctgaggtcaggagctccagaggagcctggccaacatggtgaaatcccatctctactaaaaatacaaaaattagctgggtatggtggcgggcacctgtaatcccagctactcgggaggctgaggcaggagaattgcttgaacccagaaggtgaaggttgcagtgagccaaaatcgcaccattgcactccagcctgggtgacaagagaaagactcttatctt---aaaaaaaaaaagaaaaaaaagaaaTGGCATCTTCTTCAAGAATTACATCGTGTTTCATGATAAAGAAGCTCTAATTTTGCATTTGTTCAAGTATTGATGAGATTTACCCAATATGACACCCATCTTGGATAAAATGCAAACAACACAATTTCATTTTGTCATTAACAAAACCGATTAAGTAGTCTaatataaattgcgatcttattaaaaactgatccgatttaaaaaattatggaattatggagccaataagatgttacaacctgttccaaggggaattccaaaatccacacatatctgagaccatcaagtatgatgaaatatatttgATTACTATATTGAAAAATAAACTGATTACATAGCCAACAATTGGACAGGGGTCTCCTCATCCACAGCCACACAAACCCGATCATGCAGCTGTATGGTTACAAGGCCTACATAGCCTAGAAGGGACTGGTCTGACTTGAGATTTCAtttgtatttgtattttgagacagggtcccactctgtcacccaggatggagtgcagtggtataatcatagctcactgca
accttgaccaactgggctcaagagatgctcctgcctcagctgcccccatacctgggaatacaggcaagtatcaccatgtcaggcatttttttcatttttgtagagagagaagacttgctatgttgcccaagctggcctcaaactcctagaatcaagagatctgcccatctcagccacatgagtaactggggccataggtacataccatcatgcctggctatatttattttattttattaaatttattttttttatttttgtagagaggaggtcttgctgtgttgcccaggctgctctcaaactcatggccttaaaacatactcccatctcctctgcctctcaaactgttggaactataggtgtgagccactgtacctggccTGACTTGGGATTTCTTTTATCTAGCATCCTTTACTTGGTAGGATTGGGAAAAGCAGTAGTGTTTTTTAAAATTACTTAATAATTCAATCAGAATCAAACtcaaccttgaccactgccttctctcacagctcacatccagtctgtcaggaaatcctactgactgacttcaacatgtatccaggctctaaccatctctcaccaccaccatgaaccccgtcaggatcactatcatctcccaccgggatgttgccacagcttggctcccatgcttctacccaaatcttcccatagtctttctcaactcggcagccaggtcgtgcttttaaatcaggagacggatcatgtcgcctctctgctcagaagccctcggtggttcccattttagtcagagcaaaagccaaagccccagcaatagcgtcccagggcttacacgatctgtaccgatcccagcccagcaactccctggcctcctcgctgacttcgctcc----atctctttgctccactggcctccttccagagcctcagacacaccagagagtttcctcctaatgcctttatcctgttgactcagcctacaatgctcttccctcagcaccttggccagc
tccatcacctgcttcaaacttttgctcaatattcacttatgaggccaaccctgaccactctacttaacactgccatctgtccccattcccaccatgctcatttctttctttctttttgaaacaagatcttgctttattgcccaggctggagtacactggtgcaatcacagctcacagcaacttcaacctcccaggcttaaacaatcctcccgcctcagccaccctaggaactgagactacagctgcatgccacaacacatggc------ttttatttttttttttttgagacggagtctcggtcgcccaggctgaagtgtaagggtgcgatcttggctcactgcaatgtctgccttttgggttcaagtgattctctgcctcccaagtagctgggattacaggcacccaccaccacacctggctaatgtttgtatttttagtagagatggggtttcaccatcttggctaggctggtcttgaacttctgacctcgtgatccaccctcctcggcctcccaaagtgctgggattacaggcgtgagccactgcgcctggcctttaaaaaaatattttttttagacatgaggtctcattatgttgcccaggctggtcttaagctcctgggcttaagcgatcctcccacctcagcctcctaaagttctgggattacaggcgtgagcaactgTAACATGAGGTCCCAGCTTCgtgttcattttttgttgttgctacaacaaagtaccctacatttagtggcatcaaacaccacaaatctaccatcttacagttctgggggccagaagcccaactaggtctattaaggctaaagtcaaggtgtcagagaggctgcattccttctgggggaggctctagacagaatgtgctcctttgccttttccagcttctagaagccacccccattccttgacttacctcgtgactccatattcaaggccagaagtgcagcatcttcaaatctccctctctgacctc
ttcttccattaccacatcactttctctaattctgactctcctacctcattctcttataaagatccttgtgattGGTgggtatgggggctcccatctgtaatcccaacattttgggaggccaaagaggaaggattgcttgaggccaagagttagagatcagcctggggaaaataggaagatcctgcctttac------aaaattaaaatcagctggacatggtgatgcatgcctgtagttccagctactggagaggctaaggtgggaggattgctttagcctaggaggtcaaggctgcagtgagctatgatcacatcactgcactccagcctcagtggcaga--gtgagactctgtctccgatataagaaaagaaatatacatttggtctctgcccgtggttcctggcatagagcttccaaagctcttataaagcccttcgtgacagaggtaataggagcattttctgttttgatatttagtcttagtcccaggttcctgacacaagggcctctaaggtctttcagatctgcagcatggtaagaatgcatgtgggatgctgttgagctaacggggtggctgcaagctccgagactgcttcaggaggagggctagctgccagagaaagcaaccacattttttttttaaaacagagtttggctcttgtagcccaggctggagtgcaatggcacaatctcagcttgctac
+s panTro2.chr1_random 7184740 12479 + 9420409 tacttgagaggctgaggtgagacagtcgatttagccgaggagtttgagatcagcctggacgacataactaaatctcatctctacaaggacgaggtgggaggatcacttgagcccaggaatttgtggccagcctgggcaacaaaagaagaccccatctggccgacatggccaacctggccaccatggtgaaactctgactctacaaaaatgagctgggcatgggtgacatgcatgtgtagtcctagctacttgggaggttgagatgggaggattgcttgatctcagaaggccaaagctatagtgagctatgatcacatcactgcactccagcctggatgacacagggagattctgtctcaaaaaaaagaaaagaaatatatatttaatctctgtccctggttcctggcacagagcttctaaagctcttacaaagacctcagtgatagatgtgacaggaacatcttttgttttaatatttggtcttggtcccaggtttctaacacaagagcctctaagaactttgggatctccagcatggtaagaatgcatttggggatgttgttgagatgaccgggtgactgcaagctcctaaatttcttcaagaggagggctgattaccatgcaaccacatggtaagaggcttggaactttcagcctcatgcactgaactccagggggaagaggggctggagactgacttaatcatcaacagccaaagattttatcaatcatgcttgcataataaagcctccataaacaccctgaaaggggtttgcagagctttcagggttgctggacacaggagatgctgggagggtcgcatgttcaacagagggcatgggagctctgtgcccctccgaacttaacttgccctgggtatctttctttttttttgagacaggatcaggctcttttgtccaagctggagtgcagtggcacaa
tctcagcttactgtaacctaagcctccccagtccccagctcaaggtatcctctcatctcagcttccctagtagttggaactctaggtgcacaccaccacaccggttattattattattttttaattttttatagagacaggttttcaccatgttgcccaggctggtctcaaactcctgagtttcagcaatcctcccaccttggcctcccaaagtgctgagattacaggcatgagccactgcatccagcatgcacgtctctttcattgactgtttctgagatgtatccttcacaatgaaccagtaataggaaatgaactggccagatgcggtggctcacatctgtaatcccagcactttcagaggctgaggtgggaggatcacttgagaccaggaatttgtggccagcctggccaacacaacaagaccccatctatacaaaaaataaaagaaactagccagatgtggtggtgcaggcatgtagtctcagctactagggaggctgaggtgggagaaccactggaacccagacaatcaaggctgcaatgagctatgactgcaccattgcacaccagcctgggcaacaaaataagaccctctctctcagaaaaaaagaaaataaaccgtttttctgagttccgtaaactgttctagcaaattattaaacccaagaagacagttatgggaacccccgattggtaacaggttggtcaaaagtatggtgacaacttaggacttgccattggcagctgaagtgaggatggcctcgtgggactgagcccctaacttgtggggtctgtgctaacttcaggtagtgtcagaataaagtcatgggatacccagttaatatccagagcactgaagaatttggtgtagaaactccatacatacattcagtcggaagtgtgtgagtagagacaaacaTGGGCTTTTCTGTCACCTACCTGCTTAACTGCATAGgagaggcaatatgtggtgctcatgaacaaag
caaacattaaagtcagaccagacccaacatttgactcagtcttaatatccaggtgagcctgcgcaaatcattcattattcctaaggctt-catcactccattcataaaatggggataactgtggcacctacatgtgattctgtgagaattaatgaaatattatgcttgGGGTTATTGTGATCATTATACCTGTTCCAAACTATTTGACAAGGACAGTGATGGATGAAGACATCAAAAAATCAGAAACTGCAATGAGGTCTCTCAGGCAAAATTCCATACAAGCAAATTACTGTGTCTACAAAGCATTCCTGCCACACTTAATTCACCATTCCCTGAACAAAATATGCCATCTTCGTTGTTCAGGTCTGTACAGTGCTGGTTTCCCTTCCCGGGCAGTTTGCGCTATCCCATCCCGGCCCATTCCCCATCCCTCCACCTCCCCCTTCCCTCCCCACTCTCATACAACTCTTCCTCATCTTTCAGGACTTGGCTTCAATGTCACCTTAACTGGAAGCTTCTCTCACTCTCCAGAAGAGCTTCCCATTGCACTTGATGCATGC--ACTATTATTTGATCATTTTTAAGTTACAGTCCAAATCTTTTTGTACCTGAATAACATGTTGCCCAGTCAGTCTCTCTTCCTGGATTCAGAAGTCCTTCATGGTAGATCCAGCTGGAAGTGACAAAAAGATATCTTTTGACATAAAGGGATGACACAGACAGACATAAGTTCTTAAATGTCTTAAATGTTATGTGAAAATTAAACAGAATTCAAAGACTTGTGGGGAACACTTAGGAAGTTACTGGGAATGTCATAAAGGGTTAAtttg---tttttttttttttttgagacagtctcattctgtcacctaggctggagtgcagtggtgcaatcaggctcactgcagccttgaccacctgggctcaagtaatcTC----AATTTTTATTTGGTTTAAGAAAGTCTTGGTTGAGGgtggtggcttatgc
ctgtaatctcagcactttgggaggctgagagaggtatattacttgaggccaggagtttgagatcagcctgggcaatatattaagaccctgcctctaccaaaaaACAGAGTGAATGTgtggaagacaatttttccacagactgggagtgagggaataatttcaggatgattcaagtgcattacatatattgtgcactttctttctattattactacatagtaatatataatgaaatgattctacaactcactataacgtagactcagtgggatctctgagcttgttttcctggaactagactgtccatctggggtgatgggagacagtaacagaatatcaggcattagattctcataaggagtacacaacctagatccctcgcatgcacacttcacaacagagtttgtgctcctatgagaatctaatgctgctgctgatctgacaggacatggagctcaggtggtcatgcaagtgatgggaggggctagaaatacagatgaagtttcccttcacttgcctgctgctcacctccagctctgtggccctgtGGTTGGAGACCGCTGCTCAAGTGCATTTGAAAGGATCCATCCCACGCCATTCTTCAGAGTCATCTTTACTGCTGCAGTGGTCAACTTGTAGCACCCCTAAGCTCACAGGACATATGCTTCAACTGGCATTTCACAATCAACAGTATGTGGCAGCTTGAGTCATTGTGAGCTCACTTCCTGGAAATCACCAGCATCCCATATCCCATTAGCAAGGAGCTCAGCACTGCTCCTTGGATAACCAAACCTATTCCCAAATCCCATCCATGTGCGTCTATCTCCTGGTACCCTTCCTAGCATCAATTCTGTATTTGTAGGAGTCCAATCAGGAGACACAAACCACTCAAAAGTTTAAACTAGAATGAGCAAgatggttcacacctgtaatcccagcactctgggaggccaaggtgggtggactgctttgagctcaggagtttgaga
acagtctgggaaacatggcgaaacctcgtctctacaaaaaacacaaaaatcagctgggtgtggtggcacttacctgtaatcccagctactcgggaggctgaggcaggagaattgcttgagcctggcaggtggaggctgcagtgagcagaggttgtgccactgtactccagcctgggtgacagtgtgagacccggtatcaaaaagaaaaaaC------------------------------atatatatatatatatatatgtaAATTTAATATAAAAAGTATTAATTTTggccaggcaaaatggctcatgcctgtaatcccagcactttgggaggccaaggcagacagatcacctgaggtcaggagttcgagaccagcctgaccagcatagagaaaccccatctctactaaaaatacaaaattagctgggcatggtggcacatgcctgtaatcccaactactcaggaggctgaggcaggagaatcgcttgaacccggcaggtggaggttgcgctgagccgagatagtgccattgcactccagcctgggcaacaagagtgaaactccatctcaaaaaaaaaaaaaaaaGGTATTAATTTTTACAGAGGATCAGCACAATGAGGGACACACTAGCACAAAGTAAAGACAACTCTAGAGAATACAGAACTAGCAGAggccaggcattgtggctcatgcctgtaatcccagcaatttgggaggcctaggcaggaggatcgcttgaggccaggagttggagaccaatcagtgctaaatagtgagactctgcgtctaccaataaaaagagatattagccaggtgtggtggtggtgcacacccgtagttccagctacttgggagtctggggtgggagaaatcccttaagcctgggaagtctacactacagtgagcccagattgtgccactgcactccagcctgggcgacagagtgagaccctgtcttagaaagaaaaaagaaaagaaaGTGTTAA
ACCCCCTATGGGAATCTCCTCTTCTCCTGCCCTCTCTGGAACCTCACTTGTCGGTTCTTCCTCCCACTTTCCTGTATCTTTAACCTAACCCCCACTTTTAGCTCCTTCCCATCATCATTTAAATTACTCAAACTTCTTCTGTTTTAAAAACCTCTCCCTAAACTCAGGGAGAGGTCTCCTGCACACCCATTGAGCCATCGGCTCTCCCTGGTGCCTTCTCTATAGCAGCCTGAGCCATGTCTCTAATCCATGAATCTCATCATGTTACTCCCCCATTTACATCACTTCTCCTTGCCTCAGGGATTAAGTCCAAACTCCTTAACAGCCCCTGCTCTGCCCTGCCTTGCAAGGCAGcctcactgcttgcccctctccatttcatctgctatggagtccaactgagcctcatctgccccttgaacacacactctttctcctctgggagtctctgaagtgggtaatatcctctgcttatagtatgcttccccttaaacctctactctcttcctagctagctttgactcctctgtcacttgtccgctttggcatcacctcctcatagaagacttctatgactcccgagATTCTCAGGAGCATGGCAGGTGAAGTGctcctcccatgaatggatggagattagggagtgtgtgttattcatgcttaattcaccagtgcttagctgagtacctggcataaaatagttactGTGGTGGCCAAAGTAATAACCCCCACCGCCACCAATTGCTCATGTCCTATGTTACACAGCACAAttacataggaagggggaattaagagtgcagataaaattaatgttgctcatcagctgaccttaaaacaagattatcctggagtatctaggagagcccatgtaattacaagcattctttaaaactggaagagggaggcagaaggttaagaaccagagacggTgggcacaatggctcatgcctgtaataccaatactttgggaggccagggcaggaaaatccctt
gagtgcaggagttcaaggtcagccgtggcaacatactgaggtcccatctctacaacaaaataaaaacaaaattcactgagtgtcacgatgcttacctgtagtcccagctactgggaaggctgacatggtaggattgcttgagcctgggagtttgaggctataatgagccatgataggaccactgaactccatcctgagtgacagggaaaggtcctgtttctgaagaaaaaaaGGACATTGGAATCAGGGCCCTCTCCATCCTGAGGTGCCTACAAGGCATCTCTCTCTGCAAATGAGTAAACATCACCCTCCAACTCCTTACAGAGTGGAGCAACAGGAAAACTCCTTCACCTCATTTCTGTGCTGCTTGGGAGGCCTGGACAGCCCAATAACCAGCTCCTTGCTGATGAAACAATCAGGAAATGGCTCGAGTTGAGCTAAGGAGAATTTGGATCCTTCTTTTGGTTCTCAGTAGGCAGGGTAGGggccaggcatggtggctcatacctgtaatccttgcactgtggggggccaaggtgagaggattgcttgaggccaggagctcaagaccagcctggacaacatagcaagacctgggtggcatacacctgtggtccctactacttggtaggatgaggtgggaggattgatcacttgatcccaggagtttcaggctgcaatgagccatgatcacaccactgcacttcagcctgggtgacagagccagaccatgtcacaaaaagttagaaagaaaaaaaaaaaaGAGAGAGGGAGAgagactatacacaggcaccaccacatttggctaatttttaaatattctgtagagacaaggtcttgctaggttgcccaggctagtctaaaactcctggcatcagactgggcatggtggctcatgcttgtaatcgcagcactttgggaagctaaggcaggcaaatcacctgaagtctggagttcgagaccagcctggccaacatggtgaaactctg
actctatcaaaaatacaaaaattagct-ggcagtagtggcgtgtacctgtagtctcacctactcgggaggctgaggcaggagaatcacttgaacctgggaggtggaggttgcagtggaccccatcactgcactccaccctgggtgacagagcgagactctgtcaaaaacaacaacaacaataacaaaaacaaaaacaacaacaacaaaaaaaactcctggcatcaagacatcttcctgtcttagcctcccaatgccctgggattataCTGTTTCCTATAATTGAAGACGCTTGTTCTTATACTGCTTTAAGGTATAAAGGAAG-AAaaaaaaacagataatggcaaatgttggtgaaggccgggcatggtggcagcctgtaattccagaacttagggaggctgaggtgggtagatcacttgaggccaggagtatgagaccagcctgggcaacatggtaaaatcccatcactacagaaaaatataaaaattagccaggcatggtggcgtacacctgtaattttcagctactcaggaggctgagatgagagaatcacttgtgcctgggaggtcaaggctgcagtgaactgtgatggcatcattgcactgcagcctgagagacagagcaagcccctatctagaaaaaaaaaaatgtcagtgaagatgtggaggaactggaacccacacacattactggtgggaacataaaattgtgtaaccattttgTTTGGGTATTTCTTTTCTTGTCATTTTAATTGGATTTTTAAAAAATCAagacagggtttcactatcttgcccaggctggtcttgaattcatgggctcaagccatcctcctagctgagcctcctgagtagctgggattacaggtgtgagccattgcacccaactggtgtagccacattagaaaacagtctggcagtttctcaaaaggctaaatgtacagtcatcctatgatgcaacaatttcactcctaggcatatatcccagaaa
aataaaaatatatgtccacacaaaaacttgtacaacaatcttcatagcagcattattcataatgaccaatacatggaatacatggaaacaacccaaatatccaccaactgatgaacagataaacaaaatgcagtgtgtctctaccatggaatactgccatagaaggaatgaaatattgatacacactatgacataaaggaactttgaaaacactgtgctaagagggaaaaaaagccacaaaagatcacatattgtacaattctatttgtccagattaggcaaatctatagtgacaaaaaaattaatcaatggttgcctaaggctgggggcgaaggtaggtggggagagtaggaggtagtggctaaggggtatggatttctctatagggtaatgaagggttctaaaagtgactgtggtgatcgatgcacagctctgtgaatattctaaaacctactggattgcagatttcaataaataaagtgaatggtatgtgaatattttaataaagctattaTTTAAAATAATAATAATAGGGggctgggcacaggtggtcatgcctgcctgtaatcccagcactttgggaggctgaggcaggaggatcacttgaggtcaggagttttgagcccagtcggagcaacgtggcaagatcccgtctctatgataaaaaattagctggacatggtggcacatgtctgtagtcccagctacttgggagactgaagtgagagaaccgcttgagcccaggagtttgaggctacagtgaaccatgatcatgtcactgtactgcagcctgagcaacagagcaagatgctgtctctgaaaaggaaagaaaacaaaTGCAAGTTTTTATCACTTTGTGAGTGTAGCCAAGTTGGAGGAGAAATAGACAATAATAAAAGAGCACTGAATAATGACGGTGAGTGGCTGGTTAGGCTCAGTTGCTAGCTAAATGGCTTCTAAAAAATTCAATAAAGTTACAGCTCTGGGGA
CAGTCATGTAGTCAAAGAATGAACACAAAATTCATTACAATTGCCCATGGTCTTTATTTACATGCCTTCTAGTGAAAAATTCCTAAGTGCCTAAACAGCAAGTCTGCAATGATAGCAGCTGTTTATTAAAGACTACAAAAAAGAAATGGAggccgggcatggttgctcacatctgtactccttgaattttgggaggctgaggcaggcagattgcctgagatcaggagctccagaggagcctggccaacatggtgaaaccccatctctactaaaaatacaaaacttagctgggtatggtggcgggtgcctgtaatcccagctactcgggaggctgaggcaggagaatggcttgaacccagaaggtgaaggttgcagtgagccaaaatcgcaccattgcactccagcctgggtgacaagagaaagactcttatcttaaaaaaaaaaaaaagaaaaaaaagaaaTGGCATCTTCTTCAAGAATTACATCATGTTTCATGATAAAGAAGCTCTAATTTTGCATTTGTTCAAGTATTGATGATATTTACCCAATATGACACCCATCTTGGATAAAATGCAAACAACACAATTTCATTTTCTCATTAACAAAACCGATTAAGTAGTCTAATATAAATTCTGATCTTATTAAAAACTGATCAGATTTTAAAAATTATGGaattatggagccaataagatgttacaacctgtaccaaggggaattccaaaatccacacatatctgagaccatcaagtatgatgaaatatatttgATTACTATATTGAAAAATAAACTGATTACATAGCCAACAATTGGACAGGGGTCTCCTCATCCACAGCCACACAAACCCGATCATGCAGCTATATGGTTACAAGGCCTACATAGCCTAGAAGGGACTGGTCTGACTTGAGATTTCAtttgtatttgtattttgagacagggtcccactctgtcacccaggatggagtgcagtggtataatcatagctcactgca
accttgaccaactgggctcaagagatgctcctgcctcagctgcccccatacctgggaatacaggaaagtaccaccatgtcaggcatttttttcatttttctagagagagaagacttgctatgttgcccaagctggcctcaaactcctagaatcaagagatctgcccatctcagccacatgagtaactggggccataggtacataccatcatgcctggctatatttattttattttattaaatttattttttttatttttgtagagaggaggtcttgctgtgttgcccaggctgctctcaaactcatggccttaaaacatactcccat---ctctgcctctcaaactgttggaactataggtgtgagccactgtacctggccTGACTTGAGATTTCTTTTATCTAGCATCCTTTACTTGGTAGGATTGGGAAAGGCAGTAGTGTTTTTTAAAATTACTTAATAATTCAATCAGAATCAAACtcaaccttgaccactgccttctctcacagctcacatccagtctgtcaggaaatcctactgactgacttcaacatgtatccaggctctaaccatctctcaccaccaccgtgaacccggtcaggatcactatcatctcccaccgggatgttgccacagcttggcccccatgcttctacccaaatcttcccatagtctttctcaacttggcagccaggtcgtgcttttaaatcaggagacagatcatgtcgcctctctgctcagaagccctcggtggttcccattttagtcagagtaaaagccaaagccccagcaatagcgtcccagggcttacacgatctgtaccgatcccagcccagcaactccctggcttcctcgctgacttcgctccctctatctctttgctccactggcctccttccagagcctcagacacaccagagagtttcctcctaatgcctttatcctgttgactcagcctacaatgctcttccctcagcaccttggccagc
tccatcacctgcttcaaacttttgctcaatattcacttatgaggccaaccctgatcactctacttaacactgccatctgtccccattcccaccatgctcatttctttctttctttttgaaacaaggtcttgctttattgcccaggctggagtacactggtgcaatcacagctcacagcaacttcaacctcccaggcttaaacaatcctcccgcctcagccaccctaggaactgagactacagctgcatgccacaacacatggcttttttttttttttttttttttttgagaaggagtctcggtcgcccaggctgaagtgtaagggtgcgatcttggctcactgcaatgtctgccttttgggttcaagtgattctctgcctcccgagtagctgggattacaggcacccaccaccacacctggctaatgtttgtatttttagtagagatggggtttcaccatcttggctaggctggtcttgaacttctgacctcgtgatccaccctcctcggcctcccaaagtgctgggattacaggcgtgagccaccgtgcctggcctttaaaaaa--attttttttagacatgaggtctcattatgctgcccaggctggtcttaagctcctgggcttaagcgatcctcccacctcagcctcctaaagttctgggattacaggcgtgagcaactgTAACATGAGGTCCCAGCTTCAtgttcattttttgttgttgctacaacaaagtaccctacatttagtggcatcaaacaccacaaatctaccatcttacagttctgggggccagaagcccaactaggtctattaaggctaaagtcaaggtgtcagaggggctgcattccttctgggggaggctctagacagaatgtgctcctttgccttttccagcttctacaagccacccccattccttgacttacctcgtgactccatattcaaggccagaagtgcagcatcttcaaatctccctctctgacctc
ttcttccattaccacatcactttctctaattctgactatcctacctccttctcttataaagatccttgtgattGGTgggtatgggggctcccatctgtaatcccaacattttgggaggccaaagaggaaggattgcttgaggccaagagttagagatcagcctggggaaaataggaagaccctgcctttacaaaattaaaattaaaatcagctggacatggtgatgcatgcctgtagttccagctactggagaggctaaggtgggaggattgctttagcctaggaggtcaaggctgcagtgagctatgatcacatcactgcactccagcctcagtggcagagtgtgagactctgtctccaatataagaaaagaaatatacatttggtctctgcccctggttcctggcatagcgcttccaaagctcttataaagcccttcgtgacagaggtaataggagcattttctgttttgatatttagtcttagtcccaggttcctgacacaagggcctctaaggtctttcagatctgcagcatggtaagaatgcatgtgggatgctgttgcgctaacagggtggctgcaagctcctagactgcttcaggaggagggctagctgccagagaaagcaaccacaatttttttttaaaacggagtttggctcttgtagcccaggctggagtgcattggcacaatctcagctcactac
+
+a score=294155
+s hg18.chr1 142760 3236 + 247249719 aacctccacctcccgggttcaagcaattctcctgcctcggcctcccgagtagctggaattataggggtgtgccacaatgcctagctaactgttgttatttttagtagaaacggggtttcaccatgttggtcaggctggtctcaaactcttgacctcaagtggtccatgtgcctcagccttccaaactgctaggattacaggagtgagccaccgcacctggccccaaccacattttttgaggcttggaactttcagcctcacctgctgaactccaggaggcaaaaggaactggagattgacttaactaccaatggccagtgattttatcaatcatgcctccataaacacccaaacagcagggtttggagagcttctgtgttgctaaacacaaggaggtcctgggagggtagtgtgcccaacagagggcatggaagctctgtgcccctccccacttaccttgtcctgtgcatctctttcattggctgttcctgagatggagccattacattgagccagtaatagaaaataaggtggccagatgcactggctcatgcccgtaatcccagcactttgggaggcagaggtgggcggaatcacttgagcctaggaatttgagaccaacctgggcaacataagaagaccccatctatacaaaaaataaaagaaattagccaaatgtggtggtgggaaccctgtaattccagctacttgagaggctgaagcaggagaatcacttgagccctggacgttgaggcttcaataagctatgattacaccactgcacaccagcttggacaacagagcgaggccctgtctcttaaaaagaaaagaaaaaaaacttgtttttctaagttctgtgagttgttctagtaaataattaaactcaacaagagggtcatgggaaaccctgatttctaactggttggtcaaaatacaggtgac
aacctaggacttgcaactggcatctgaagtgagggtggtcttgtgggactgagcccctaacctgtgggttctgtgctaactctaggtagtgtcagaatggaattgtgggatacgcggttggcatccagagagttggagaactggtgtagaaactctgcacacacatttggtcagaagtctgtgagtagagagaaacGtgttgcaggaagtcagggaccccaaacggagggactggctgaagccacagcagaagaatataaattgtgaagatttcatggacatttattagttccccaaattaatacttctataatttcttaggcctgtcattactgcaatctctgaacataaattgtgaagatttcatggacacttatcacttccccaatcaatacccttgtgattttctatgcctgtcttta-----atctcttaatccggtcatcttcgtaagctgaggatgaatgtccccgcaggaccctgtgataattgcgttaactgcacaagttgtttaaacaatatgaaacctgggcaccttgaaaaaagaacaggataacagcaatttcagggaacaagggagataaccttaaactctggctgcctgtgggccgggttgaacagagccatatttctcttctttcaaaagcaaataggagaagtattgctgaattctttttctcagcaaagaacatccctgagaaagagaatgcatccctaaggggaggcctctgaaatggccgctttggggacggctgtcttttacagtcatagataagggatgaaataagccctgggttcgcgtggcgctcccaggcttatcaggacaaggaaattcccgcctaataaatgttggtcagatgggttgtctgctctcaaaccctttctcctgataagatgttatcaatgacaatgcgcgcccgaaacttcattagcaattttaatttcgccccagtcctgtggtcctgtgatcttgccctgcctccatttgc
cttgtgatattttattaccttgtgaagcatgtgatctctgtgacccacaccctattcgtacactccctcaccttttgaaaatcactaataaaaacttgttggttttgcggcttggggggcatcacggaacctgccgacgtgtgatgtctcccctggacatccagctttaaaatttctctcttttgtactctttccctttatttctcagactggctgacactcagggaaaatagaaaagaacctacatgaaatatcaggggtgaatttcccccgataTCACACTGGCTCTTCTCTCACCTGTCTACCTGCTTAACTTAATAGgagaggcaatgcatggtgctcatgaacaaggcaagcattaaagtcagaccagactaacatttgactcagtcctaatattcaggtgagcttgggcaaatcgctcattaaccccaagtcttcatcattttgtgcatataatggggataactgtggcacccacctgtttttgtgagaatcaatgaaatattatgcttgATGTTATTGTGATCATGATACTATCTGACAAGGGCAGTGATGCATGATAACATCAAAAAATTAGAAACTGTAATGAGGTCTCTTGGGCAAAATTCCATACAGGCAAATTACTGTCTCTACAAAGCATTTCTGCCACACTTAATTCACCATACCCTGAACAAAATGTGCCATCTTCATTGTTCAGGTCTGTATAGTGCTGGTTTCCCTGCCTGGGcagctcactccatcccatcccagcccaatccccatccctccacctcccccttccctccccactcTCATACAACTCTTCCTTATCTTACAGGACTTGGCTTCAATGTCACCTTAACTGGAAGCTTCTCTCCCTCTCCAGAAGAGCTTCCGATTGCACTTGATGCATGCACTATTATTTGATCATTTTTGAGTTACAGTCCAAGTCTTTTTGTACCTGAATAACATGTTGCCCAGTCAGTTTCTCTTCCTGGATTCAGAAG
TCTTTCATGGTAGGTCCAGCTAGAAGTGACAAAAAGACATTTAAAAAAAAAAAAAAAGAGGGATGACACAGACAGACATCAGCACTTAAAAGTTTTAAACGATATGTGAAAAACAAAATTTAAGGGCTTCTAGGAGAAATGTAGGAGGGAAGGTGTTACTGGGAAATATGATAGAAGGTTAAtttttattttattttatttttagagaaagggtcttgctctatcacctaggctggactgcagtggtgcaatcacagttaactgcagcctcaacctccagggcttgagcaatattcccatctAAtttttattttgtttaag
+s panTro2.chr1_random 7199179 3214 + 9420409 aacctccacctcccgggttcaagcaattctcctgcctcggcctcccgagtagctggaattatagggatgtgccacaatgcctagctaactgttgttatttttagtagaaacggggtttcaccatgttggtcaggctggtctcaaactcttgacctcaagtggtccatgtgcctcagccttccaaactgctaggattacaggagtgagccactgcacctggccccaaccacattttttgaggcttggaactttcagcctcacctgctgaactccaggaggtaaaaggaactggagattgacttaactaccaatggccaatgattttatcaatcatgcctccataaacacccaaacagcagggtttggagagcttctgtgttgctaaacacaaggaggtcctgggagggtagtgtgcccaacagaggacatggaagctctgtgcccctccccactt----------gtgcatctctttcattggctgttcctgagatggagccattacattgagccagtaatagaaaataaggtggccagatgcgctggctcatgcccgtaatcccagcactttgggaggcagagatgggcggaatcacttgagcctaggaatttgagaccaacctgggcaacataaaaagaccccatctatacaaaaaataaaagaaattagccaaatgtggtggtgggaaccctgtaattccagctacttgagaggctgaagcaggagaatcacttgagccctggaggttgaggcttcaatgagctatgattgcagcactgcacacaagcttggacaacagagcgaggccctgtctcttaaaaagaaaagaaaaaaaacctgtttttctaagttctgtgagttgttctagtaaataattaaactcaagaagagggtcatgggaaaccctgatttctaactggttggtcaaaatacaggtgac
aacctaggacttgcaactggcatctgaagtgagggtggtcttgtgggactgagcccctaacctgtgggttctgtgctaactctaggtagtgtcagaatggaattgtgggatacgca-ttggtatccagagagttggagaactggtgtagaaactctgcacacaaatttggtcagaagtctgtgagtagagagaaacGtgttgcaggaagtcagggaccccaaacggagggaccggctgaagccacggcagaagaacataaattgtgaagatttcatggacatttattagttccccaaattaatacttctataatttcttaggcctgtctttactgcaatctccaaacataaattgtgaagatttcatggacacttatcacttccccaatcaatacccttgtgatttcctatgcctgtctttactttaatctcttaatccggtcatcttcgtaagctgacgatgaatgtccccgcaggaccctgtgataattgcgttaactgcacaagttgtttaaacaatatgaaacctgggcaccttgaaaaaagaacaggataacagcaatttcagggaacaagggagataaccttaaactctggctgcctgtgggccgggtggaacagagccatatttctcttctttcaaaagcaaataggagaaatattgctgaattctttttctcagcaaagaacatccctgagaaagagaatgcatccctaaggggaggcctctgaaatggccgctttggggacggctgtcttttacagtcatagataagggatgaaataagccctgggttcgcgtggcgctcccaggcttatcaggacaaggaaattcccgcctaataaattttggtcagatg-----tctgctctcaaaccctttctcctgataagatgttatcaatgacaatgcgtgcccgaaacttcattagcaattttaatttcgccccggtcctgtggtcctgtgatcttgccctgcctccatttgc
cttgtgatattttattaccttgtgaagcatgtgatctctgtgacccacaccctattcgtacactccctcaccttttgaaaatcactaataaaaacttgttggttttgcagcttggggggcatcacggaacctgccgacatgtgatgtctcccctggacatccagctttaaaatttctctcttttgtactctttccctttatttctcagactggctgacactcagggaaaatagaaaagaacctacatgaaatatcaggggtgaatttcccccgataTCACACGGGCTCTTCTCTCACCTGTCTACCTGCTTAA-----TAGgagaggcaatgcatggtgctcatgaacgaggcaagcattaaagtcagaccagactaacatttgactcagtcctaatattcaggtgagcttgggcaaatcgctcattaaccccaagtcttcatcattttgtgcatataatggggataactgtggcacccacctgtttttgtgagaatcaatgagatattatgcttgATGTTATTGTGATCATGATACTATCTGACAAGGGCAGTGATGCATGATAACGTCAAAAAATTAGAAACTGTAATGAGGTCTCTTGGGCAAAATTCCATACAAGCAAATTACTGTCTCTACAAAGCATTTCTGCCACACGTAATTCACCATTCCCTGAACAAAATGTGCCATCTTCATTGTTCAGGTCTGTATAGTGCTGGTTTCCCTGCCTGGGcagctcactccatcccatcccagcccaatccccatccctccacctcccccttccctccccactcTCATACAACTCTTCCTTATCTTACAGGACTTGGCTTCAATGTCACCTTAACTGGAAGCTTCTCTCCCTCTCCAGAAGAGCTTCCGATTGCACTTGATGCATGCACTATTATTTGATCATTTTTGAGTTACAGTCCAAGTCTTTTTGTACCTGAATAACATGTTGCCCAGTCAGTTTCTCTTCCTGGATTCAGAAG
TCTTTCATGGTAGGTCCAGCTAGAAGTGACAAAAAGACATTT-AAAAAAAAAAAAAAGACGGATGACACAGAAAGACATCAGCACTTAAAAGTTATAAACGATATGTGAAAAACAAAATTTAAGGGCTTCTAGGAGAAATGTAGGAGGGAAGGTGTTACTGGGAAATATGATAGAAGGTTAAt-----ttttattttatttttagagaaagggtcttgctctatcgcctaggctggactgcagtggtgcaatcacagttaactgcagcctcaacctccagggcttgagcaatattcccatctAATTTTTATTTTGTTTAAG
+
+a score=112167
+s hg18.chr1 145996 1215 + 247249719 aaatgcagtcttgctcttagcaaagctaaagtgcaatggtgtgatcatagcttactgcagcctcaaccttctagactcaagtgatcctccagtcttagcctccccagtagctcggactacaggtgtgcactgcaacgtgtagctcattttttttttttaatttttagtagagacaaagtgtcactatgttgaccaggttggtggtgatctcctacactcaggcagttctctcacctcagccttccaaaatgctgggattacaggtgtgagctgccacacctggctGAGGGGGTTAATTTTTAATTATATAAAGAGCTCAAAGCaaatattagaaggagcctaaatgcctccagcagttgactggtactggtaaattgtgatacatccatataataaaatattatgcaaccatgaaaaggattaagatagatcaataggtattgGCACAAATGTCCACGAAATATGAAAATATGAAGTGATGTTCAATCACCATGTACGTATCTTGAAGGATATGGCCCATTTTCTCAACTGCAATTATTTCCTGAGATAAGATTATGGGTCTAAAGAGTGAAGGACATTTTTCACttatttaaaagtatttatcatttttataatttaataaaaGATTAAACAGATCATTGAATTAGTAAAAGACAAAGTAACTCTATAAATAAATGGAAAAGACACAGATACCccaggcatggtggctcatgcttataataccagtactttgggagggggtggtggggggattgcttgaggccaggagttccagaccagcctaagaaacaaagcaagacctcctctctagtaaaaataaaaaaataaaaataattggccaggcatagtggcatgtgcctatagtcccaactactgaggtggaaggatcacctgagcctaggaggtcaaggctgcagtgagttgagactgtgccactacact
gaagcctaggagacagagcgagacttcatctcaaaaaaaaaaaaaaggacaataaagaaaTAAAGCTAATAAGCTAACATAAGGAAAGATAAAATATGTGACAAATAggctgggcacatggctcacagctgtaatcaagcactttgggaggccaaggcgggtagatcttgagatcaggagttcgagaccagcctgatcaacatggtgaaaccacgtttctactaaaaatacaaaaattaaccaggcatggtggcatatgcctgtaatcccagc
+s panTro2.chr1_random 7208475 1214 + 9420409 aaatGCAgtcttgctcttagcaaagctaaagtgcaatggtgtgatcatagcttactgcagcctcaaccttctagactcaagtgatcctccaggcttagcctccccagtagctcggactacaggtgtgcactgcaatgtgtagctcatttttttttta-aatttttagtagagacaaagtgtcactatgttgaccaggttggtggtgatctcctacactcaggcagttctctcacctcagccttccaaaatgctgggattacaggtgtgagctgccacacctggctGAGGGGGTTAATTTTTAATTATATAAAGAGCTCAAAGCaaatattagaaggagcctaaatgcctccagcagttgactggtactggtaaattgtgatacatccatataataaaatattatgcaaccatgaaaaggattaagatagatcaataggtattgGCACAAATGTCCACGAAATATGAAAATATGAAGTGATGTTCAATCACCATGTACGTATCTTGAAGGATATGGCCCATTTTCTCAACTGCAATTATTTCCTGAGATAAGATTATGGGTCTAAAGAGTGAAGGACATTTTTCACttatttaaaagtatttattatttttataatttaataaaaGATTAAACAGATCACTGAATTAGTAAAATACAAAGTAACTCTATAAATAAATGGAAAAGACACAGATACCccaggcatggtggctcatgcttataataccagtactttgggagggggtggtggggggattgcttgaggccaggagttccagaccagcctaagaaacaaagcaagacctcctctctagtaaaaattaaaaaataaaaataattggccaggcatagtggcatgtgcctatagtcccaactactgaggtggaaggatcacctgagcctaggaggtcaaggctgcagtgagttgagactgtgccactacact
gaaacctaggagacagagcgagacttcatctcaaaaaaaaaaaaaaggacaataaagaaaTAAAGCTAATAAGCGAACATAAGGAAAGATAAAATATGTGACAAATAggctgggcacatggctcacagctgtaatcaagcactttgggaggccaaggcgggtagatcacgagatcaggagtttgagaccagcctgatcaacatggtgaaaccacgtttctactaaaaatacaaaaattagccaggcatggtggcatgtgcctgtaatcccagc
+
+a score=1066337
+s hg18.chr1 147211 11682 + 247249719 taATAGGAGGTCTTTCATTTATCACACAGAAAATAACTTGTTAAATTataatacctgtgtgggcgaaggtgcagtgaaatggccattttcttgtagtattagtggtgtttaaaatgtatataagccttccagcataaagcttggaaattttttttaaatcatacagacagtgactcattatactgcctcctccaactcctggcctcaagcaatcctcccacctcagcctcccaaagtgctggaattacaggctgacagccaccatgcctgaaagctttgcaatttacatcgagggtaataagaatgctcatgccctgtgactcacagtaatctcacttctggaaatttcacctttggatataattcaacctaaacaaaaggtcatatgcacaaACACAGTGAAAATCTGGGAGTAATTTTTTTCTCTTTTTTTAAaaaaatatggaatgcttcacaaatttgcatgtcattctttcacagaggccgtgccaatctctctattgttccaacttaagtatgtgtgctactgaggcaagcaTGAGTAATTTAAGATAGGGTGGTTAAGTGAAATAAGGAAGAATTATGGAGAATTTAAAAATCTATGCTATTTATAggcacctagtaacagctcagtaaatattagctgctactattATTATTTTTATGGTAATTTCACTCAATTAAAAACTGTCGTTAAAAATTGCCATTGTCATGGAACATAATGTCTCCTACTGTATAATTGTAGAAACAGATACAATttgtcccttggtatatggggggattagttccagctctcccatttctgtgtataccaaaatccacgcatactcaagttttcaaagtcagtcctgtggaatccacatataACACAAATGGGaaaattagtgaggtgtggtgacaagcacctgtagtcccagctacttgtgaggctgaggcaggag
gattgcttgagcccaggaggttgaggctgcagtgagccataattgcaccactacactccagtctgggcaacagagtgagacAGAAGGTTGACTTTTTAATAGAATTTTTCTGTTCACTTGAAGATATGGTCAGGATTGTGGCATATGAAAATTCTTCATAAAATAACTATCTAATCCAATTAATGCTGGAATTGGGAACAGCAGAAGTGTCATCTCAGAGCTACTCGCAATGAAAGGTGATGTCTGGGGCTCAGGTGTGTTGAGGTCCCCATGCCTGGACTATGGGTGCTGAGTGGGATTTACTTGTCCATCCATTTTCTATATTCCAGCACTGGGAAACTAGGG-------------------------------------------------------------------------------ACAGTACTTGTTCTCAAGGGAATCTTCAGCTTAGGTGGCTCTGTAAAAGAGAAATTACATCATTGAAAAATCGTCGCAggtcaggtgaggtggctcatacctataatcccagcccactgggagactaaggcaggaggattccgtgaggccaggagttcaagaccagcctgagcaacacagtgaaacctcatctctacaaaaaattagaaaatgaactgggtgcggtaaaacattcgtatagtcccagctactctggaggctgaaataggaggatcgcttgagcccaggaagtggaagctgcagtgagctctgatctcaccactgcactctagccttggtgacagagtgagaccctgtctcaaGacacacacaaacacacacaca--------cacacacacacacCCCCAATCTCACTCTGTCCAGCCTTGACTAATCAAAAGGGCCTTCTGGTTACAGAAGAGGTATGCTCTTTTGTAGGACAGGGAGAGACCAGCAAGCTTGTTCACAGACTTTTCCTCATCCTCTGCTTAGTTTTCCAAGAACCCTCACAGTGGAAATGGAG
TCTCTGGGAAAATGACCTAAATCTTTGGGTTACCAGGGGAGAAATATGCCTCCTTTGTCAATTAATAAATGGAACATCTGCCTTAAAATCCAGGGAGTTCTGCTAGAATGAATCACTCCCTAAGACCCTGACCAATGCATGGAACATGAAAAACTGAAGTTTAActgggcgcggtggatcacgcctgtaatcccagcactttgggaggctgaggcgggcggatcacctgaggtcaaaagttctagatcagcctggccaacatggtgaaaccccgtctctactaaaaatacaaaaattagttgggcatggtggtggacacctgtaatcccagctacttgggaggctgaggcaggaaaatcgcttgaacccggaaggcggaggttgcagtTACTTCTAGAAGAATTTCCATTAGCCCTTTGAAATCCTTCAACATTCATGAAGGCCAAAGAGTTTTCACCTAATTTAATCTGATGGGTATGTGACCAGAGTCTTTCTAGGGAATAGAGACTCCCAAACAGTTCGACTGGGAAGTGAGGAGAGAATTTATTACTCAAAACCAAAGGGAAATGAAAAGAGGCCAACATAGAATGTCATTATTCTTTCTTGGCGGGGAATGGATTCCAGAGTCATTCTGTGACCTTTACATGACCTCCTTATTAGCATCTAAAAGCTTCCAGTGTAGGATGCAGCCAGCTAGGTTCTCTTCTAATGTAATAAAATTTGCTTCGGCAAATCTTATGCAGAGCCATCTCCAGGCTCCAGAAACAATAGGCTATAAATTACTGGATCTCCCATTTGATACAATGAAGTATGAGCATGGTCCTGAATGACTCCTCTACATACTACTCTGGGTGGCTTGAAGTGAATTTGATACAAGAACTGGAGCGAGGGCAAAGCAGAGCTAGATCTAGGATTAATGTGCTTGGGCCCAGCTCCTCACTACTCACCTATGAGTCTAGTTCCAGAACCCAAGTAGAGGATGGGGAAAC
AAGGCTCCTGACTTTTTTTCCCTAATATCTGCATCTCTTTCACATTTCTTATCTCCTTGCAAAGAAACTAAACAGGCTCAACTGAAATAACTAAATGATTAAACCCTATACAGAGAATCTCCAAAGACTGACAAAATATCATTCAAGACTGTTACACAGACAACCTTGAGGATGACTTGATGTACCAGTGATCTACAATATTTGGGATCATTCCAAATTCCCATCAAGGATCTGCCTATATCAACAAAGGAGCCAAGGACCAACCATTCAAATGGGCCCTGCTGCCAAGCC-TTTTTTTTTTTTTTTTAACAATGCCATCTCTTCATATTGTTCCATTTAACAAAACTGCAGCCCTTCATCTATCCTTAAGTCCCTTGGCCAGTGGTACAGAGCCAGAGTATGCTACTCCCTAGCAGGAAATCAACAGGATGACCTACTAAACACCATTCAGAAGATGCTAAGACCCATGAATTGCAACAGGAAAGAAAAGACAGAGAATTAGTCAGACAGGTACATGCTGTGCCAAAAGTGCACTACAGCCCCCACCCAATTCTGCCTAATCCTAGCTGGGCTGACACCAACCTGATGAGACAGGCCTATAAGATCTCAAACTAAAACAGAAACTCCTGAACTGGGTTCTTTCGAGCCCAGGAAGCAGCAGTAAATCATTAAAGAACAGATAAGTTCTTAAGGTGAGGGAGAGTTTCAGATAAATGGAATGCTGGTAGAACACAGGGCCCAAAGGAGCAAAAGTTAACCTAAGCCCAGGTAGAACCTTGTTTACTAGAGTATTAGGCATGGGTTTGGGCAACTATTCTAACCAGAGAAACTGGCTTCAGTGAGGGCAAGTTGGCAATCCAAGGTATAGCATGCATAGGGCTGGCAAAATTCAGGGTGACTGAAGCAAAAGCTTCATAACCAGAAAGACCACATCTGGGGGTAGAGCACAAAACTCTCAAGAGATGAATCTTTGTAAGAGTGAGGCAGA
ACTATATAGCAGTTTTAGGAGATCTGTTGGTGCCCAGCAAGAGCTCCAAACGGGCTATATGCAGGGATGCAGGCTGTAGTCTCAGGAGAGGAGGTTCACAAAAGTCATTCAGTCCAAGACCTCAAACTGTGttctctactaaaaggaatcaaggttccctagagaaatggctgactccatgtatggtgcagtatattgatcctggaacatc-tgttttgccagaaagcaaggaagccatcaaagtccaacaggatcacttcaaaaagacatgaaagtcaacttgaagagataattattaacctagatgagacaatctaagcatccaaaacaataaagactgcaatggcctgaaatacatcaaatgcaaacaataatctatgagttcataatggtattcagaaaaaaaaactactggtcattagagggaaggttactaggtcactaacttactactctgaaaagtgACTTAAGATGAGAGGTAGGGTGGAAAATTAGCTATTTATTCAGTCTTTCCTGTACAAACATAAATTTTTAGGGAGATtgaagcagatgaaacaaatctggaaaaatggaggtaactgcttaatctgcgggttgggtgcatggaggttcaacatatttcttttgtgtatatttgaaCCCCCTACAAAAAAAGCACAAGAGAGAATGTGAGCCAAGCAGCTTAGGGTTTAGGCAAGGCTTCTGCCTACAAGAGACACTAGGATATGAGGGGTAGTTTTAGCCCTAATGGGCTGAGCCAACTGGAGGTATATAGGGAAGTGCTAAATTGCAGAGGTATCATGTTGCCCAGCACTTGATCAAATCCTAGATCCTAGGTCTGCTTGGTAGCATGCTTCCTAGGTAGTGGATCTGAGGCTACCTATAGAACTTCCTTTGCAGTCATAGTTCGCTCAGAAACTACAAAAGTGCTTGCTCTTGAAAATGGAgtctttgtccatttcatgcttctataaaagaataccacaga
ctgcataatttataaaaaggaaaaaaggaaggaaagaaaaaaggaagggaggagggaaggagggaaaaagggaaggagggaaggaaaggaaggaagggaaagaaggaaaggaaggaagggaaagagagaaagagggaaggaggaagggagggaaggagggagggagggagagagagagggagggaggggaagggaagaaaagggaagagaagggaaaggaggaagaaaaggaaaggAaaggaataaattttatttcttaacagttctggatgttaggaagtccaaggttgaggggcctgcatctggtaaaggtcttcttgctgcatcatcccactacagaaggcagaaggaaaagagagtgcaagaaagcaagagggcaaaaggggctgaactctgttttataataagcccactctgtgattactaatctattaccacaataacaacattaactcattcatgaaggctattttattaggccccacatcccaactgttgcattgaggattgagtttccagcacataaactttgggggacacatttaaaccatagcaGAGCACTTAGGTTAATTCAACTAAGAGGAGCTGGGAAAATCAAAGGCATGAGAAAGACAGCAAAAGCTAGCAGAGAGAAATGCATAGGTTAAGGAAAAAAGTCACAGTGAATCCTGTAGTGCAGGCTACTTTATGAAAAGCACCTAAAAAAGATCTCATTAACTCCCCCAGCTCACCTCCACGCACATCTAAAGAGCCACACACAGCACCACCAAAGGCAGCACAATGAGAACAGCATTCTCCTCAACAGACAAGCTGGGAGTATCTAGACACCCGACCTCAATAGCTCCAGAACAGCCCTAAAACATTTCCTCCCTAACCACCACTCAAGTCACCAGCTTGGAAAGTATTAAGAAAACCCAAATCCTGACACACCACTATGAAACAACTTAAAACAGCAAAGAACAACCCATTTAAACAGCAATGCCAGCTGT
TGGGAAAAAAAGGAACAATGAGTAGAGGAGAAACAGACCTCTCGGGGTCCACCAAGACCCAGTCTCTCAGCTTCAGCACTTTTAAATGCAGAATCCATACCCCTCTGGGGCCTGTGGAGCTCCACAAGGCATGTCGTCCTCAAAGATAAATGAGCAGGCAAGCTGGCTAGAAAACCACTAAGGGTATTTATTCTTTAAAGAATCTTTACAGGGTCAAAGAAGAATGGGTCTTAACTGGCTATGTGAACTCCCCACAGATTCTGAGGATGATGTCAGTATCCCTTTCCAGATGTGTTTAACACTTTGCAGTCACTTGTATTCCTGCTACTGAGTGCCAGTGCTTTGCTAATTTGAACTGATTCCAGCTCACGCTGACCCCAGCTCCCTGGATGTTACCATTAGCCAAGACTGTCACCCATACTGTACCCTTTCAAAGAGTCCTAAAAACAGCTCTTCACCTACTCTTCCAAGACAAGTAAAAATGTCTGCCAAAGAAATGGGGAAAAAAGATTCAGAGAGTGAAAACAATTAATATACTAACAAGAGAGCAAAAAGCAAAGGGGGAGGAGAAACTAGGAAAATCATATATGGGCTCTCACCTATTTCCAAAGCTGGGCTAATGTCCTTTTGCTTGTGTCTGAATAAGGCACCAATTTTAAGCTGATAATGAAAAAAAAAGAAAAAGAGAAAGAAGCAGGCCCAggctgggcgcagtggctcatgcctgtaatcccagcactttgggaggccgaggcgggtggatcacccaaggtcaggagttctagaccagcctggtcaacatggtgaaacaccatctctactaaaaatacaaaaaattagccaggcatggtggcgcatgcctgtaaatccagctactaaggaggctgaggcaggagaattgcttgaacctggaaggcagagaatgtggtgacctgagatcacgtcattgccctcaagccacggcaatgagaacaaaattcggtAaaaac
aaaacaaaacaaaacaaaaTCACCATAAAATAACTCAGACTTAATTAAATACAACCCTAGTGGTGAATGACTAAAGATGGATTACTCATAACAGAGACAACAGTCCAATAAGAATCCAGGAATCTTACCTTTTAATAAC-AAAAAAATCCTTTCCTTCTAAAGTAACATCCTCTCAAGGCCAGGAATTCCATTAGTAGAAAGCCTTCCTAAAAAACAAAATTCCTggccaggcatgggttcacgtctgtaatctcagcactctgggaggccgaggcgggaagatcacttgatatcaggagtcgaggcgggaagatcacttgacgtcaggagttcgagactggcccggccaacatggtgaaaccgcatctccactaaaaatacaaaaattagcctggtatggtggtgggcacctgtaatcccagtgacttgggaggctaaggcaggagaatttcttgaacccaggaggcagaggttgcagtgaccagcaaggttgcgccattgcaccccagcctgggcgataagagtgaaaactccatctcaaaaaaaaaaaaaaaaaaaaaaTTCCTTTGGGAAGGCCTTCTACATAAAAATCTTCAACATGAGACTGGAAAAAAGGGTATGGGATCATCACCGGACCTTTGGCTTTTACAGCTCGAGCTATAAGAAAAAAAAGAAAAAGGGATATCATTTAAACACAGTATGTAGAAAAGAATAATTATTGAATCTGTACTGGTCTTTAACTTTTACACTTTGATCTTTAATTCTGTTATTGTGATTGAGTCCAAAGAAAAACAGTATGAGTAAAATAAAAAGAACACCAAAAATGCTAATATTCTGTTTACCGAAGTCTGTAGTGAAATATCCCATTAAATccaagtgcagtgacacacccataatcccaagcactttgggaggctgaggcgggtgaatctcctgaagtcaggagttcaaggccagcctggccaacatggtgaaaccccaactctac
tacaaatacaaaaattaggcaggcgtggtggcagaggcctgtaatcccagctacttaggaggctgaggcagggagaattgcttgaacacaggaggtgagcttgccatgagctgagatcataccactgcactccagcgtgcgtgacagaacaaaacttcaacctcc-aaaaaaaaaaaaaaaaaaaaaaaCAGCTAGCAGGTGACATTTGCTATAGGGAGACTAGGGATATGATCTTGCTGCAATCTTTCCATTTTAGTAAATCTAAACAAGTGTGAATCCATTCTGTTTCGTCCCCACTCCACTCCAGAGCCAAAACAAGAAAAACAATTATATTTCTAGTTCTTTAAAAACATATCTAACTAAATCATCTAATTAAAAGATAATATGCATGGTTCCATACTCTAAAAGAAAACTTATGTCCTGCATATCATGGACATTTGATGAATGCTTATTCAGTTGACTGGTGTAGACTTCAATAATAACCTGTTCAATGCATTATGCCAGATGAATCTTGCATCTCAAAAGTAGAACAAATATTGTTCTTTCAGTTTTGTCTACCCATAAATGCAATATTTACTAATAAAAAGAAAATGAGTTTATTGTTCTAGAGAGTATGAGAATTTTGACAACATGAATTCTCCTGTCCTAGGACATAATTAATACTTAGAGGCATACTATTTCATGTGGAAGCTACCATTAAATCAATGTTAAGTGTTAATTACCTCACATAATCTTCTAATCTGACTT--GACTGAAGACGTACCTGACAAAGTTGATTTATCAAGTTGTAAATCTTCACCTGTTGAATTCATAAGTTCATGTCTGAAAGGTGAGAATAAATACTTAATATTCATTAGGCAATATTCAGCAAAGTAATATCCACTAGTACATATTTAATATTTCATCATGAACTGCGGGTGTGAAGAGAAAGGACAggctgggcacagtggctcacacctgtaatcccagcagtttgggaggccgaggc
aggcagatcatgaggtcaggagttcgagaccagcctggccaacatggtaaaaccccgtctgtactaaaagtacaataattagctgggcatggtggcaggcacctgtaatcccagctactcgggaggctgaggcaggagaattgcctgaacccaggaggtggaggttgcagaaaccattatcacgccactgcattccagcctgggcaagagagcaagattctgtctcCATCAATCAATCAATAAAAATATAAGAAGGAAGcatttactgtgtatttatatgtctggtattatgtgaagcactttactatcttatcaaatcttcgggacagatcttcagttctcatgaccacaaaagaggatactaaagctcagacaggagaagagacgtggccaGCCTGTGTCCCCAGGGCCTATGGTCTTACCACTAGGTTACAGTGTTTCCAGATATCACATGTTGTGAGATTTTTGCTTTAAAATGAACCAAAAAAAAACCAAAGGTGAAAAAGGCATAAGCTATTAAAAAGTGGGAGAAACACTAAGAGAACCTTAAGCATGTAACTAAAAATATTATGGAAATGTTATTGAATACATTAGCAAATTTAGTGCTAGGTTTTCATTGAGGAGTAGGTTATATTACTCATGATGAAGAAAAATGTTCATTTTAAGTATATTAACATAAATACCATCAATATTGTTTATCATGTTTAAATGTTCACTTAAAGCAATTCAGTTAAAATTCTGCATATCATACAATTTTATAGTTTGCTAGTAGGTTACAAGTAAATAGTCACCCAAATAAAAACATCATGTTTTCCACTGGTTGTTGCTCTTTTTTAGGTGAGTATTTGATATATACCAACAGAGAGAGGATAATAACAAATCGCTAATTTCTTTCATCACTATATAAAGGTGGCTTCAGGATAGAATAGTATCAGTGTAATGATGAATTTGAAATCTAACATCAATTCAGTGATGCATCAAGATAAAAG
TAGAGACAACAGGGGCACCTTGGTGAGTACTGAACAttttatttatttatttattttgagatggagttttgctctttttgcccaggctacagtgcaatggtgccaacctcgcctcactgcaacctctgcctcctgggttcaagcgattctcctgccttggcctcccgaatagctgggattacagacatgcgccaccacacccgtctaattttgtatttttagtagagacggggtttctccatgttggtcaggctggtctcgaactcccgacctagatatctgcctgccttggcctcccaaagtgctgggattacaggtgtgagccaccacgcccagATGAATTCCAAATTTAACAAAGCAGACTAAGAGAAACAATTCATTTAAAAAAATAATATTTggccaggcatggtggctcacacctataatcccagcactttgggaggctgaggtgagtggatcaggaggtcagcagttcaagaccagcctagccaagatcatgaaaccccgtctctactaaaaatacaaaaatcagccaggcgtggtggctggtgcctgtaatcctagctgctcgggaggctgaggcagagaactgcttgaacccgggaggcggaggttgcagtgagccgagatcgtgccactgcactccagcctgggcgacagagtgaggctccgtctcaaaaaaaataaataaaTAATTCAATGAAATTCCTAAGATCCAGGGCTTTGCAATAAATATGTAAATAAATTTCCAATCTCCATACTGAAAGTTTAAAAGAAATGCTAACTAATAACTAAAGAAATACAACTTTTCCTCAGCTTTGCAGCAATCTAGAAACAAAGTGTGTAGACACTACAAAGCACCTTACAAGGAGAAACATGTAAGGATGGCATGACTCGCCGGCAGCCCTGGGATTGTCCACGGTACCCCCATGATGAACAGTAACTCCACTGTGTAAACGCCCATGAACCTAAGATTACAAGACTTTTCC
AGTTTAGACATACCATATTTTCTTTCAGACAATTCTTCAGTTTGTTTACGTAGATCAGCGATACGATGATTCCATTTCTCTGAAAACCAAGCAAAAGTTGCTTCTCAATAACACGTCCCTATGTCAGAGCAGCACTAACATATAATGACTGATTTCATATATTTTACATTCTAACAGTCCATATCATTTTACTGCTTTCAAGAAAAAATTTCCCCTTCTTGGTGGTTCTTAGAATTGGTTTAATGGGAGACTATTAGAGAAGCTGAAAAGCAGGAGGGCAGAAAAGCTCAATCAAATTAAACACAATAACAGGGAGGTCACAATGAGGCGGTCTCCAGGGGTCTTTTAGCAAACTTCCTAAAACATGTCTCAGCTGTGTGAAATAAGACTTTACAGCagccgggtgcagtggtgcaggcctgtaatcccagcactttggcagcagaggcaggcggatcactttgagctcagggcaacatagccaaaacccccctccctagccccacccccaccccgtccctaccaaaaatacaaaacagcagggcatggtggcgggcgcctgtagtcccagctactcaggaggctgaggcaggagaatcacctgaacccaggaggcagacattgcagtgagccaagatcacgccactgccagcctggatgacagagcaagactccacctcaaaaaaaacaaaaacaaaaaCACAAGGTTAAGAGGGACCCCCGACCTTACAGATACAAGTTTAAGAGGGACCCCTAAGCAAAAAATGCCAACCCTTTTTCTCCCAATCATTGAAACACCAGGAGGGTGTAACAGTTTTGCAGCCTAGCtgtagcaggctgatgcccccaagatgcccatatcctaatcccgggaactagtgaacatgaccttat-atggcaaaaggaactttgcagatataatgaagttaagggtctttggcttt
+s panTro2.chr1_random 7209832 11753 + 9420409 TAATATGAGGTCTTTCATTTATCACACAGAAAATAACTTGTTAAATTacaatacctgtgtgggcgaaggtgcagtgaaatggccattttcttgtagtattagtggtgtttaaaatgtatataagccttccagcataaagctgggaaattttttttaagtcatacagacagtgactcattatactgcctcctccaactcctggcctcaagcaatcctcccacctcagcctcccaaagtgctggaattacaggctgacagccaccatgcctgaaagctttgcaatttacatcgagggtaataagaatgctcatgccctgtgactcacagtaatctcacttctggaaatttcacctttggatataattcaacctaaacaaaaggacatatgcacaaACACAGTGAAAATCTGGGAGTAATTTTTTTCTCTTTTTTAAAaaaaatatggaatgcttcacaaatttgcatgtcattctttcacagaggccgtgccaatctctctattgttccaacttaagtatgtgtgctactgaggcaagcaTGAGTAATTTAAGATAGAGTGGTTAAGTGAAATAAGGAAGAATTATGGAGAATTTAAAAATCTATGCTATTTATAggcacctagtaacagctcagtaaatattagctgctactattatTATTTTTATGGTAATTTCACTCAATTAAAAACTGTCATTAAAAATTACCATTGTCATGGAACGTAATGTCTCCTACTGTATAATTGTAAAAACAGATACAATttgtcccttggtatatggggggattagttccagctctcccatttctgtgtataccaaaatccacgcatactcaagttttcgaagtcagtcctgtggaatccacatataACACAAATGGGaaaattagtgaggtgtggtgacaagcacctgtagtcccagctacttgtgaggctgaggcaggag
gattgcttgagcccaggaggttgaggctgcagtgagccataattgcatcactgcactccagtctgggcaaaagagtgagacAGAAGGTTGACTTTTTAATAGAATTTTTCTGTTCACTTGAAGATATGGTCAGGATTGTGGCATATGAAAATTCTTCATAAAATAACTATCTAATCCAATTAATGCTGGAATTGGGAACAGCAGAAGTGTCATCTCAGAGCTACTCACAATGAAAGGTGATGTCTGGGGCTCAGGTGTGTTGAGATCCCCATGCCTGGACTATGGGTGCTGAGTGGGATTTACTTGTCCATCCATTTTCTATATTCCAGCACTGGGAAACTAGGGTTTATCCATCTTGGTAAGATGTCATTTAAATTCCACTTCGCAAGAACCACAAATGGAAGAAAGGCCATGAAACCGCAGGACAGTACTTGTTCTCAAGGGAATCTTCAGCTTAGGTGGCTCTGTAAAAGAGAAATTACATTGTTGAAAAATCGTCGCAggtcaggtgaggtggctcatacctataatcccagcccactgggagactaaggcaggaggattccgtgaggccaggagttcaagaccagcctgagcaacacagtgaaacctcatctctacaaaaaattagaaaatgaactgggtgcagtaaaacattcgtatagtcccagctactctggaggctgaaataggaggatcgcttgagcccaggaagtggaagctgcagtgagctctgatctcaccactgcactccagcctcggtgacagagtgagaccctgtctcaaGATacacacaaacacacacacaaacacacacacacacacacacacCCAATCTC----TGTCCAGCCTTGACTAATCAAAAGGGCCTTCTGGTTACAGAAGAGGTATGCTCTTTTG----------AGAGACCAGCAAGCTTGTTCACAGACTTTTCCTCATCCTCTGCTTAGTTTTCCAAGAACCCTCACCGCGGAAATGGAG
TCTCTGGGAAAATGACCTAAATCTTTGGGTTACCAGGGGAGAAATATGCCTCCTTTGTCAATTAATAAATGGAACATCTGCCTTAAAATCCAGGGAGTTCTGCTAGAATGAATCACTCCCTAAGACTCTGACCAATGCATGGAACATGAAAAACTGAAGTTTAActgggcgcggtggatcacgcctgtaatcccagcactttgggaggctgaggcgggtggatcacctgaggtcaaaagttctagatcagcctggccaacatggtgaaaccccgtctctactaaaaatacaaaaattagttaggcatggtggtggacacctgtaatccgagctactcgcgaggctgaggcaggaaaatcgcttgaacccggaaggcggaggttgcagtTACTTCTAGAAGAATTTCCATTAGCCCTTTGAAATCCTTCAACATTCATGAAGGCCAAAGAGTTTTCACCTAATTTAATCTGATGGGTATGTGACCAGAGTCTTTCTAGGGAATAGAGACTCCCAAACAGTTCAACTGGGAAGTGAGGAGAGAATTTATTACTCAAAATCAAAGGGAAATAAAAAGAGGCCAACATAGAATGTCATTATTCTTTCTTGGCGGGGAATGGATTCCAGAGTCATTCTGTGACCTTTACATGACCTCCTTATTAGCATCTAAAAGCTTCCAGTGTAGGATGCAGCCAGCTAGGTTCTCTTCTAATGTAATAAAATTTGCTTCGGCAAATCTTATGCAGAGCCATCTCCAGGCTCCAGTAACAATAGGCTATAAATTACTGGATCTCCCATTTGATACAATGAAGCATGAGCACGGTCCTGAATGACTCCTCTACATACTACTCTGGGTGGCTTGAAGTGAATTTGATACAAGAACTGGAGCGAGCACAAAGCAGAGCTAGATCTAGGATTAATGTGCTTGGACCCAGCTCCTCACTACTCACCTATGAGTCTAGTTCCAGAACCCAAGTAGAGGATGGGGAAAC
AAGGCTCCTGACTTTTTTTCCCTAATGTCTGCATCTCTTTCACATTTCTTATCTCCTTGCAAAGAAACTAAACAGGCTCAACTGAAATAACTAAATGATTAAACCCTATACAGAGAATCTCCAAAGACTGACAAAATATCATTCAAGACTGTTACACAGACAACCTTGAGGATGACTTGATGTACCAGTGATCTACAATATTTGGGATCATTCCAAATTCCCATCAAGGATCTGCCTATATCAACAAAGGAGCCAAGGACCAACCATTCAAATGGGCCCTGCTGCCAAGCCTTTTTTTTTTTTTTTTTTACAATGCCATCTCTTCATATTGTTCCATTTAACAAAACTGCAGCACTTCATCTATGCTTAAGTCCCTTGGCCAATGGTACAGAGTCAGAGTATGCTACTCCCTAGCAGGAAATCAACAGGATGACCTACTAAACACCATTCAGAAGATGCTAAGACCCATGAATTGCAACAGGAAAGAAAAGACAGAGAAATAGTCAGACAGGTACATGCTGTGCCAAAAATGCACTACAGCCCCCACCCAATTCTGCCTAATCCTAGCTGGGCTGACACCAACCTGATGAGACAGGCCTATAAGATCTCAAACTAAAACAGAAACTCCTGAACTGGGTTCTTTCGAGCCCAGGAAGCAGCAGTAACTCATTAAAGAACAGATAAGTTCTTAAGGTGAGGGAGAGTTTCAGATAAATGGAATGCTGGTAGAACACAGGGCCCAAAGGAGCAAAAGTTAACCTAAGCCCAGGTAGAACCTTGTTTACTAGAGTATTAGGCATGGGTTGGGGCAACTATTCTAACCAGAGAAACTGGCTTCAGTGAGGGCAAGTTGGCAATCCAAGGTATAGCATGCATAGGGCTGGCAAAATTCAGGGTGACTGAAGCAAAAGCTTCAGAACCAGAAAGACCACATCTGGGGGTAGAGCACAAAACTCTCAAGAGATGAATCTTTGTAAGAGTGAGGCAGA
ACTATATAGCAGTTTTAGGAGATCTGTTGGTGCCCAGCAAGAGCTCCAAATGGGCTATATGCAGGGATGCAGGCTGTAGTCTCAGGAGAGGAGGTTCACAAAAGTCATTCAGTCCAAGACCTCAAACTGTGttctctactaaaaggaatcaaggttccctagagaaatggctgactccatgtatggtgcagtatattgatcctggaacatctttttttgccagaaaggaaggaagccatcaaagtccaacaggatcacgtcaaaaagacatgaaagtcaacctgaagagataattattaacctagatgagacaatgtaagcatccaaaacaataaagactgcaatggcctgaaatacatcaaatgcaaacaataatctatgagttcataatggtactcagaaaaaaaaaatactggtcattagagggaaggttactaggtcactaatttactactctgaaaagtgACTTAAGATGAGAGGTACGGTGGAGAATTAGCTATTTATTCCATCTTTCCTGTACAAACATAAATTTTTAGGGAGATTGAAGCAGACAAAACAAATCTGGAAAAATGGAGGTAACTGCTTAATCTGCGGGTTGGGTGCATGGAGGGTCAACATATTTCTTTTGTGTATATTTGAACCCCCTACAAAAAAAGCACAAGACAGAATGTGAGCCAAGCAGCTTAGGGTTTAGGCAAGGCTTCTGCCTACAAGAGACACTAGGATATGAGGGGTAGTTTTAGCCCTAATGGGCTGAGCCAACTGGAGGTATATAGGGAAGTGCTAAATTGCACAGGTATCATGTTGCCCAGCACTTGATCAAATCCTAGATCCTAGGTCTGCTTGGTAGCATGCTTCCTAGGTAGTGGATCTGAGGCTACCTATAGAACTTCCTTTGCAGTCATAATTCGCTCAGAAACTACAAAAGTGCTTGCTCTTGAAAATGGAgtctttgtccatttcatgattctataaaagaataccacaga
ctgcataatttataaaaaggaaaaaaggaaggaaagaaaaaaggaaggaaggagggaaggagggaaaaagggaaggagggaaggaaaggaaggaagggaaagaaggaaaggaaggaagggaaagagagaaagagggaaggaggaagggagggaaggagggagggagggagagagagagggagggaggggaagggaagaaaagggaggagaagggaaaggaggaagaaaaggaaaggAaaggaataaattttatttcttaacagttctggatgttaggaagtccaaggttgaggggcctgcatctggtaagggtcttcttgctgcatcatcccactacagaaggcagaaggaaaagagagtgcaagaaagcaagagggcaaaaggggctgaactctgttttataataagcccactctgtgattactaatctattaccacaataacaacactaactcattcatgaaggctattttataaggccccacatcccaactgttgcattgaggattgagtttccagcacataaactttgggggacacatttaaaccatagcaGAGCACTTAGGTTAATTCAACTAAGAGGAGCTGGGAAAATCAAAGGCATGAGAAAGGCAGCAAAAGCTAGCAGAGAGAAATGCATAGGTTAAGGAAAAAAGTCACAGTGAATCCTGTAGTGCAGGCTACTTTATCAAAAGCACCTAAAAAAGATCTCATTAACTCCCCCAGCTCACCTCCACCCACATCTAAAGAGCCACACACAGCACCACCAAAGGCAGCACGATGAGAACAGCATTCTCCTCAACAGACAAGCTGGGAGTATCTAGACACCTGACCTCAATAGCTCCAGAACAGCCCTAAAACATTTCCTCCCTAACCATCACTCAAGTCACCAGCTTGGAAAGTATTAAGAAAACCCGAATCCTGACACACCACTATGAAACAACTTAAAACAGCAGAGAACAACCCATTTAAACAGCAATGCCAGCTGT
TGGGAAAAAAAGGAACAATGAGTAGAGGAGAAACAGACCTCTCGGGGTCCACCAAGACCCAGTCTCTCAGCTTCAGCACTTTTAAATGCAGAATCCATACCCCTCTGGGGCCTGTGGAGCTCCACAAGGCATGTTGTCGTCAAAGATAAATAAGCAGGCAAGCTGGCTAGAAAACCACTAAGGGTA-TTATTCTTTAAAGAATCTTTATAGGGTCAAAGAGGAATGGGTCTTAACTGGCTATGTGAACTCCCCACAGATTCTGAGGATGATGTCAGTATCCCTTTCCAGATGTGTTTAACACTTTGCAGTCACTTGTATTCCTGCCACTGAGTGCCAGTGCTTTGCTAATTTGAACTGATTCCAGCTCACGCTGACCCCAGCTCCCTGGATGTTACCATTAGCCAAGACTGTCACCCATACTGTACCCTTTCAAAGACTCCTAGAAACAGCTCTTCACCTACTCTTCCAAGACAAGTAAAAATGTCTGCCAAAGAAATGGGGAAAAAAGATTCAGAGAGTGAAAACAATTAATATACTAACAAGAGAGCAAAAAGCAAAGGGGGAGGAGAAACTAGGAAAATCATAGATGGGCTCTTACCTATTTCCAAAGCTGGGCTAATGTCCTTTTGCTTGTGTCTGAATAAGGCACCAATTTTAAGCTGCTAATG--AAAAAAAGAAAAAGAGAAAGAAGCAGGCCCAggctgggcgcagtggctcatgcctgtaatcccagcactttgggaggccgaggcgggtggatcacccaaggtcaggagttctagaccagcctggtcaacatggtgaaacaccatctctactaaaaatacaaaaaattagcgaggcatggtggcacatgcctgtaaatccagctactcaggaggctgaggcaggagaattgcttgaacctggaaggcagagaatgcggttacctgagatcatgccattgccctcaagccacggcaatgagaacaaaattcggtAaaaac
aaaacaaaacaaaacaaaacCACCATAAAATAACTCAGACTTAATTAAATACAACCCTAGTGGTGAATGACTAAAGATGGATTACTCATAACAGAGATAACAATCCAATAAGAATCCAGGCATCTTACCTTTTAATAACAAAAAAAATCCTTTCCTTCGAAAGTAACATCCTCTCAAGGCCAGGAATTCCATTAGTAGAAATCCTTCCTAAAAAACAAAATTCCTggccaggcatgggttcacgtctgtaatctcagcactctgggaggctgaggcgggaagatcacttgatgtcaggagtcgaggcgggaagatcacttgacgtcaggagttcgagactggcccggccaacatggtgaaaccccatctccactaaaaatacaaaaattagcctgctgtggtggtgggcacctgtaatcccagcaacttgggaggctaaggcaggagaatttcttgaacccaggaggcagaggttgcagtgaccagcaaggttgtgccattgcaccccagcctgggcgataagagtgaaaactccatctc--aaaaaaaaaaaaaaaaaaaaTTCCTTTGGGAAGGCCTTCTACATAAAAATCTTCAACATGAGACTGGAAAAAAGGGTATGGGATCATCACCAGACCTTTGGCTTTTACAGCTCGAGCTATAAGAACAAAAAGAAAAAGGGATATCATTTAAACACAGTATGTAGAAAAGAATAATTATTGAATCTGTACTGGTCTTTAACTTTTACACTTTGATCTTTAATTCTGTTATTGTGATTGAGTCCAAAGAAAAATAGTATGAGTAAAATAAAAAGAACACCAAAAATGCTAATATTCTGTTTACCAAAGTCTGTAGTGAAATATCCCATTAAATccaagtgcagtgacacacccataatcccaagcactttgggaggctgaggcgggtgaatctcctgaagtcaggagttcaaggccagcctggccaacatggtgaaaccccaactctac
tacaaatacaaaaattaggcaggcgtggtggcagaggcctgtaatcccagctacttaggaggctgaggcagggagaattgcttgaacccaggaggtgagcttgccatgagctgagatcataccactgcactccagcgtgggtgacagaacaaaacttcaacctccaaaaaaaaaaaaaaaaaaaaaaaaCAGCTAGCAGGTGACATTTGCTATGGGGAGACTAGGGATATGATCTTGCTGCAATCCTTCCATTTTAGTAAATCTAAAC-AGTGTGAATCCATTCTGTTTCGTCCCCACTCCACTCCAGAGCCAAAACAAGAAAATCAATTATATTTCTAGTTCTTTAAAAACATATCTAACTAAATCATCTAATTAAAAGATAATATGCATGGTTCCATACTCTAAAAGAAAACTTATGTCCTGCATATCATGGACATTTGATGAATGCTTATTCAGTTGACTGGTGTAGACTTCAATAATAACCTGTTCAATGCATTATGCCAGATGAATCTTGCATCTCAAAAGTAGAACAAATATTGTTCTTTCAGTTTTGTCTACCCATAAATGCAATATTTACTAATAAAAAGAAAATGAGTTTATTGCTCTAGAGAGTATGAGAATTTTGACAACATCAATTCTCCTGTCCTAGGACATAATTAATACTTAGAGGCATACTATTTCATGTGGAAGCTACCATTAAATCAATGTTAAGTGTTAATTACCTCACATAATCTTCTAATCTGACTTAAGACTGAAGACGTACCTCACAAAGTTGATTTATCAAGTTGTAAATCTTCACCTGTTGAATTCATAAGTTCATGTCTGAAAGGTGAGAATAAATACTTAATATTCACTAGGCAATATTCAGCAAAGTAATATCCACTAGTACATATTTAATATTTCATCATGAACTGTGGGTGTGAAGAGAAAAGACAggctgggcgcagtggctcacacctgtaatcccagcagttggggaggccgaggc
aggcagatcatgaggtcaggagttcgagaccagcctggccaacatggtaaaaccacgtctgtactaaaagtacaataattagctgggcatggtggcaggcacctgtaatcccagctactcgggaggctgaggcaggagaattgcctgaacccaggaggtggaggttgcagaaaccattatcacgccactgcattccagcctgggcaagagagcaagattctgtctcaaTCAATCAATCAATAAAAATATAAGGAGGAAGcatttactgtgtatttatatgtctggtattatgtgaagcactttactatcttatcaaatcttcgggacagatcttcagttctcatgaccacaaaagaggatactaaagctcagacaggagaagagacgtggccaGCCTGTGTCCCCAGGGCCTATGGTCTTACCACTAGGTTACAGTGTTTCCAGATATCACATGTTGTGAGATTTTTGCTTTAAAATGAACCAAAAAAAAACCAAAGGTGAAAAAGGCATAAGCTATTAAAAAGTGGGAGAAACACTAAGAGAACCTTAAGCATGTAACTAAAAATATTATGGAAATGTTATTGAATTCATTAGCAAATTTAGTGCTAGGTTTTCATTGAGGAGTAGGTTATATTACTCATGATGAAGAAAAATGTTCATTTTAAGTATATTAACATAAATACCATCAATATTGTTTATCATGTTTAAATGTTCACTTAAAGCAATTCAGTTAAAATTCTGCATATCATACAATTTTATAGTTTGCTAGTAGGTTACAAGTAAATAGTCACCCAAATAAAAACATCA-GTTTTCCACTGGTTGTTGCTCTTTTTTAGGTGAGTATTTGATGTATACCAACAGAGAGAGGATAATAACAAATCGCTAATTTCTTTCATCACTATATAAAGGTGGCTTCAGGATAGAATAGTATCAGGGCAATGATGAATTTGAAATCTAACATCAATTCAGTGATGCATCAAGATAAAAG
TAGAGACAACAGGGGCACCTTGGTGAGTACTGAACAttttatttatttatttattttgagatggagttttgctctttttgcccaggctagagtgcaatggtg-caacctcggctcaccgcaacctctgcctcctgggttcaagcgattctcctgccttggcctcccgaatagctgggattacagacatgtgccaccacacccgtctaattttgtatttttagtagagacggggtttctccatgttggtcaggctggtctcgaactcccgacctagatatctgcctgccttggcctcccaaagtgctgggattacaggtgtgagccaccgcgcccagATGAATTCCAAATTTAACAAAGCAGACTAAGAGAAACAATTCATTTAAAAAAATAATATTTggccaggcatggcggctcacacctgtaatcccagcactttgggaggctgaggtgagtggatcaggaggtcagcagttcaagaccagcctagccaagatcatgaaaccccatctctactaaaaatacaaaaatcagccaggcgtggtggctggtgcctgtaatcctagctgctcgggaggctgaggcagagaactgcttgaacccgggaggcggaggttgcagtgagccgagatcgtgccactgcactccagcctgggcgacagagtgaggctccatctcaaaaaaaataaataaaTAATTCAATGAAATCCCTAAGATCCAGGGCTTTCCAATAAATATGTAAATAAATTTCCAATCTCCATACTGAAAGTTTAAAAGAAATGCTAACTAATAACTAAAGAAATACAACTTTTCCTCAGCTTTGCAGCAATCTAGAAACAAAGTGTGTAGACACTACAAAGCACCTTACAAGGAGAAACATGTAAGGATGGCATGACTCGCCGGCAGCCCTGGGCTTGTCCACGGTACCCCCATGATGAACAGTAACTCCATTGTGTAAACGCCCATGAACATAAGATTACAGGATTTTTCC
AGTTTAGACATACCATATTTTCTTTCAGACAATTCTTCAGTTTGTTTACGTAGATCAGCGATACGATGATTCCATTTCTCTGAAAATCAAGCAAAAGTTGCTTCTCAATAACACGTCCCTATGTCAGAGCAGCACTAACGTATAATGACTGATTTCATATATTTTACATTCTAACAGTCCATATCATTTTACTGCTTTCAAGAAAAAATTTCCCCTTTTTGGTGGTTCTTAGAATTGGTTTAATGGGAGACTATTAGAGAAGCTGAAAAGCAGGAGGGCAGAAAAGTTCAATCAAATTAAACACAATAACAGGGAGGTCACAATGAGGCGGTCTCCAGGGGTCTTTTAGCAAACTTCCTAAAACATGTCTCAGCTGTGTGAAATAAGACTTTACAGCagccgggtgcagtggtgcaggcctgtaatcccagcactttggcagcagaggcaggtggatcgctttgagctcagggcaacatagccaaaacccccctccctagccccaaccccaccccgtccctaccaaaaatacaaaacagcagggcatggtggcgggcgcctgtagtcccagcttctcaggaggctgaggcaggagaatcacccgaacccaggaggcagacattgcagtgagccaagatcacgccactgccagcctggatgacagagcaagactccacctcaaaaaaaacaaaaacaaaaaCACAAGGTTAAGAGGGACCCCCGACCTTACAGATACAAGTTTAAGAGGGACCCCTAAGCAAAAAATGCCAACCCTTTTCCTCCCAATCATTGAAACACCAGGAGGGTGTAACAGTTTTGCAGCCTAGCtgtagcaggctgatgcccccaagatgcccaaagcctaatcccgggaactggtgaacat-accttctnaatgagggagggnctttgcagatataatgaagttaagggtcttTGGCTTT
+
+a score=376695
+s hg18.chr1 158893 4074 + 247249719 tggggttgatgtactcactcggatccttgtaagagcagagcaggtgatgg-agagggtgggaggtgtagtgacagaagcaggaaactccagtcattcgagacgggcagcacaagctgcggagtgcaggccacctctacggccaggaaacggattctcccgcagagcctcggaagctaccgaccctgctcccaccttgactcagtaggacttactgtagaattctggccttcagacctgtaagggaatacattttggttgttttaagtcactaagtgtgtggtaatttgttgcagcagccacaggaaactagtaTTGTAGTGAAGCCTCAAAACCCCCCTGAAGGggctgggctcagtggctcatgcctgtaatcccagcactttgggaggccgagatgggtggatcacttgaggtcaggagttcgagaccagcccagccaacatggtgaaatgccatctatacaaaaaatacaaaaactagccgggcatggtggcacatgcctgtaatctcagctactcaggaggctgagacaggagaattgtttgaacccaggggggcagaggttgcagtgaactgagattccaccactgcactccagcctgggtgacagagcgacgctccatctcgaaaacaaaacaaaacaaaaaaaCCCCACCTGAAGGTTTCCAGTTCTGCCAGCACTCTCCCACCCAACCCCCAGAAACAGACATTCCATTGCTGTGGGCCACGGACAGGCAGAAGGAAGCACCTCCTCATGGCAGAGGCCTACCCAGGAGAAACCCAAGGGAAGGCACTACTGGGCTGGCCCCTCTCTGCCAAGGCCATAttcttttttttttttt-----gaggccagtttcactctgtctcccagactggagtgcaggggcacaatctcggctcacttcgacctctgcctccccagttcaagtgattctcctgcctca
gtctcctgagtagctgggatgacaggagtgtagcatgcctagctaatttttgtatttctagtagagatgcggttttgccatgttgcccaggctggactcgaactccttgcctcaagtagtccacctgtctcagccccgcaaagtgctgctattataggagtgagccactgcacccagcATTTGCCAAGACCTTTGATGGCAGGCTTTTTCCAGGTGATCAGTCCTTGTCTGGTCTGGCTCTGCCCCACTCTCCTTCTCACCTAGTTGGAATCCCTAGCTACTTTTCAGTAGAGGAGAGTGTGTACCCCAATCCCAGCTTGGTTCAGATCTGCATTTAACTCATGGAACCTGGCTGCTCCCCAGGTTCTGAAGAAAAAAACGGTCTCTCTGTGGGTATGATAAAGGATGGGCCTGTCCCCAGGACCCTGTGAGAGGGAAGCCCAATGTCCCACCAGGTTGGCAGGGCTGGGGAAGGGAAAGTGTTATGGCAGCCCCAAGAAAAAAAAGAGGCAGCAGAGGGAGCAGGAGAGCGCTCACATGGAACTCATGCCACTGCCTGAG----GGGAGGGAGGAGTGCACGCCAGTGACGTCAGGGGGCAGAGAGGCGCAGTTCCAGGGCGGCTTTCCCCCTCACTTCCTGCCATGTTACTCTGATCGCCTCCACGTGAGCCTGCCCACTTTGTGCCCAGGGGCCTGTAGAAAACCACAGCTCCCCATGGTTATGGCCCCAGGAGTGGGGCAGAGCAGGGAGGAGTCCTGCACAGAGGAGAGGCAGGGGCAGGAGGGAGTGGGCCTCAAACTCCAGGAGGGGGCCCTTCTCATGGGTCCTGCTTTCTGGCTTCTCCTTCCTTACCCCTGGGCTGATCACTTGGGGAAGAACTGAGACAAAGTTTCTCACCCTCAGGCCCAAAGGGTTTAATTACTGGGCCCTTAGGGAGGTGTGAGCCCCCTGAAAGGATGCAAGgttttgttttgttttgtttttt
gagacagagtttcgctcctgtcgcccaggctggagtgcagtggcgtgatctcaccacactacaacctgcgcctcccaggttcaagtgattctcctgcctcagcctctggagtagctgggattacaggtggctgccaccacgcctggctaattttttgtatttttagtagagacagggtttcgccatgttgggcaggctggtcttgaactcctgacctcaggtgatccgactggctccgcctcccaaagttctgggatcacatcagccactgtgcttggccACGATGAAAGGTTTTGTGTGGAGAGCATGTACATGCCTTTCTGGGAAAACAGTCCACAGCTCTTATTCTCAGCAGGCTTCACGGTGAAAAAAGGTTAGAACTCTTGCTACAGAGCTGTGGAAGCAGCCAGGTGAGGGGCCTGCCAAGGGCACTCTGGGCACTACCTGGGCACTCTCGAGCCCATCATCCCCTAGGCAGGCTGCACTGCTTGGTATTTGCAGAGCTGAGGGGGTGGGGCATGTGGGGACTGTGAAATCGCCCTGAGATGACCCACAGTCCTCAGCTAGGAAGTAAGCGCTGCATCTCCTGCAGCGTCCTCCATCCCTAGAGCCATGGGGCCAGGAGAACCGGCCCTTGCAGCAAGTGAAAAGCCTATTATTGATTCCCTCCCTAGCCATGTAGACAGTGAACCAAGACACTCATATCAGGTAAATGCCTTGTTCTCTGTTACCAAGGTAACCAGTAGGCATTCCCAGATACAGCGAAGGTCCTCACACCAAGATATGCACCTGGCCACCTGAGGAAAGAGAAAGGACTATCTGAGGGGACGGGGCTGAGCTGGGTGTGGAGTGGTCCTTGTGGGTCTTGGAGAGTGGGAGGGGGAACAGCATGAGCCAGGCCTCGAGGCAGAAGGACAACCAGGAGACAGCCTGGAAAAAGTGCTGGACCCACAAGGGCTCAAGGCTGGCCAGAGGGGAGGTGGGATAGG
CTGTAAAGTCCTGAGGTCTGAAGATTGGCCCTGGCAGGAAGAAACCAGGTAAGGTGGGGTGTTACCTACACCCTCGGGGCCAGATGCAGGCCAGAGCCAGCCAATTACCAGGCCCTTAGGGAGGTGTGAGCCCCTTGAAATGATGCAAGGttttttgtttttgttttggagacggagtttcgctcttgtcacacaggctggCACCTTTGCCCAGAGCAGGCACCAAGACTTCTGGCTCTGGGTGTGACCTCAGTCTGGGTAAAAGCCCCAGCCCCCACCAGCACCACCTACCCCCTAGACTACTTCAGGTGCTGAGCCCAAGCCAGGGGCAGGAAGCTAAACTGATGCCTAGGGTAATCCCAACAAAGTCCCTGGTTCCCCGCAGCTATGGGGCTGACGGGGAATTACAGCCCAAACCCCAGATGCTGGCTCTCAAACTAACACTGAGCCCTCAGtgcccacagggagatacaatcagcgcactttccagatggggaaatgggatcagagaagtgcaacagccttgcccaatgccccagaccagGGCTCCAGGCCCAGAGTGTTCTTTTGTCACTGTGTTCAGAGGGCAGCAGCTGCTGTGATGTACCCACCTGAGCCTGGCAGCTCTCTCCAACTTTGGAAGCCCAGGGGCATGGCCCCTGTCCACAGATGCACCTGGCATGAGGCGTGCCCAGAGGGACAGAGGCAGATGAGTTTCGTCTCCTCCACTGGATTGTGAGGGCCTAGAAGGAGACAAGGGTCTGCTTGAGAAGGCAGTGAACAGCGAGCAGCCTGAGGCAGTGCCCCTCTGGATGGATGCGCAGTGCCTGGATGGAACCTGGCTCAGACAGAGCTCAGTTCTGCAGGTCCCTGAGGCATGGAGAGTTcacagctaccaagtgtaggagtctggattcaaagccaacggcgtgactccaaagtccctgccctagcccctggaccaccctTGCAGGCCCATCAGATGCCCA
GGCCAGCAGCACAGCCGGCCAAGACCAGGGAAACTTGGGGAGCCTCAGAGCACCCCCAGGTATTCCAACCTAACCCTGGTGCCCCGCCTCTCACCACCCTTCTTCCTGCTTTAACCTCAACCCCTACACAAAGCCTGGGCCACTTAATGTGGCATCAAACAGACGCCTCA
+s panTro2.chr1 224073421 4083 + 229974691 tggggttgatgtactcactcggatccttgtaagagcagagcaggtgatgggagagggtgggaggtgtagtgacagaagcaggaaactccagtaattcgagacgggcagcacaagctgaggagtgcaggccacctctacggccaggaaacggattctcccgcagagcctcggaagccaccgaccctgctcccaccttgactcagtaggacttactgtagaattctggccttcagacctgtaagggaatacattttcgttgttttaagtcactaagtgtgtggtaatttgttgcagcagccacaggaaactagtaTTGTAGTGAAGCCTCAAAACCCCCCTGAAGGggctgggctcagtggctcatgcctgtaatcccagcactttgggaggccgaggtgggtggatcacttgaggtcaggagctcgagaccagcccagccaacatggtgaaatgccatctatacaaaaaata-aaaaactagccaggcatggtggcacatgcctgtaatctcagctactcaggaggctgagacaggagaattgtttgaacccagtggggcggaggttgcagtgaactgagattccaccactgcactccagcctgggtgacagagagacgctccatctcgaaaacaaaacaaaacaaaaaaaCCCCACCTGAAGGTTTCCAGTTCTGCCAGCAGTCTCCCACCCAACCCCCAGAAGCAGACATTACATTGCTGTGGGCCATGGACAGGCAGAAGGAAGCACCTCCTCATGGCGGAGGCCTACCCAGGAGAAACCCAAGGGAAGGCACTGCTGGGCTGGCCCCTCTCTGCCAAGGCCATAttcttttttttttttttttttgaggccagtttcactctgtctcccagactggagtgcaggggcacaatctcagctcacttcgacctctgcctccccagttcaagtgattctcctgcctca
gtctcctgagtagctgggattacaggagtgtagcatgcctagctaatttttgtatttctagtagagatggggttttgccatgttgcccaagctggactcgaactccttgcctcaagtagtccacctgtctcagccccgcaaagtgctgggattacaggagtgagccactgcacccagcATTTGCCAAGACCTTTGATGGCAGGCTTTTTCCAGGTGATCAGTCCTTGTCTGGTCTGGCTCTGCCCCACTCTCCTTCTCACCTAGTTGGAATCCCTAGCTACTTTTCAGTAGAGGAGAGTGTGTACCCCAATCCCAGCTTGGTTCAGATCTGCATTTAACTCATGGAACCTGGCTTCTCCCCAGGTCCTGAAGAAAAAAAGGGTATCTCTGTGGGTATGATAAAGGATGGGCCTGTCCCCAGGACCCTGTGAGAGGGAAGCCCAATGTCCCACCAGGTTGGCAGGGCTGGGGAAGGGAAAGTGTTATGGCAGTCCCACGAAAAAAAAGAGGCAGCAGAGGGAGCAGGACAGCGCTCACATGGAACTCATGCCACTGCCTGAGTGAGGGGAGGGAGGAGAGCACGCCAGTGACGTCAGGGGGCAGAGAGGCGCAGTTCCAGGGCGGCTTTCCCCCTCACTTCCTGCCATGTTACTCTGATCGCCTCCAGGTAAGCCTGCCCACTTTGTGCCCAGGGGCCTGTAGAAAACCACAGCTCCCCATGGTTATGGCCCCAGGAGTGGGGCAGGGCAGGGAGGAGTCCTGGACAGAGGAGAGGCAGGGGCAGGAGGGAGTGGGCCTCAAACTCCAGGAGGGGGCCCTTCTCATGGGTCCTGCTTTCTGGCTTCTCCTTCCTTACCCCTCGGCTGATCACTCGGGGAAGAACTGAGACAAAGTTTCTCACCGTCAGGCCCAAAGGGTTTAATTACTGGGCCCTTAGGGAGGTGTGAGCCCCCTGAAAGGATGCAAGgttttgttttgttttgtttttt
gagacagagtttcgctcctgtcgcccaggctggagtgcagtggcgtgatctcaccacactacaacctgtgcctcccaggttcaagtgattctcctgcctcagcctccggagtagctgggattacaggtggctgccaccacgcctggctaattttttgtatttttagtagagacagggtttcgccatgttgggcaggctggtcttgaactcctgacctcaggtgatccgactggctccgcctcccaaagttctaggattacatgaggcactgtgcttggccACGATGAAAGGTTTTGAGTGGAGAGCATGTACATGCCTTTCTGGGAAAACAGTCCACAGCTCTTATTCTCAGCAGGCTTCACGGTCAAAAAAGGTTATAACTCTTGCTACAGAGCTGTGGAAGCAGCCAGGTGAGGGGCCTGCCAAGGGCACTCTGGGCACTACCTGGGCACTCTCAAGCCCATCATCCCCTAGGCAGGCTGCACTGCTTGGTATTTGCAGAGCTGAGGGGGTGGGGCATGTGGGGACTGTGAAATCGCCCTGAGATGACCCACAGTCCTCAGCTGGGAAGTGAGCGGTGCATCTCCTGCAGCGTCCTCCATCCCTAGAGCCATGGGGCCAGGAGAACTGGCCCTTGCAGCAAGTGAAAAGCCTATTATTGACTCCCTCCCTAGCCATGTAGACAGTGAACCAAGACACTCATATCAGGTAAATGCCTTGTTCTCTGTTACCGAGGTAACCAGTAGGCATTCCCAGATACAGTGAAGGTCCTCACACCAAGATATGCACCTGGCCACCTGAGGAAAGAGAAAGGACTATCTGAGGGGATGGGGCTGAGCTGGGTGTGGAGTGGTCCTTGTGGGTCTTGGAGAGTGGGAGGGGGAGCAGCATGAGCCAGGCCTCGAGGCAGAAGGACAACCAGGAGACAGCCTGGAAAAAGTGCTGGACCCACAAGGGCTCAAGGCTGGCCAGAGGGGAGGTGGGATAGG
CTGCAAAGTCCTGAGGTCTGAAGATTGGCCCTGGCAGGAAGAAACCAGGTAAGGTGGGGTGTTACCTACACCCTCGGGGCCAGATGCAGGCCAGAGCCAGCCAATTACCAGGCCCTTAGGGAGGTGTGAGCCCCTTGAAATGACTCAAGGttttttgtttttgttttggagacggagtttcgctcttgtcgcacaggctggaACCTTTGCCCAGAGCAGGCACCAAGACTTCTGGCTCTGGGTGTGACCTCAGTCTGGGTAAAAGCCCCAGCCCCCACCAGGACCACCTACCCCTTAGACTACTTCAGGTGCTGAGCCCAAGCCAGGGGCAGGAAGCTAAACTGATGCCTAGGGTAATCCCAACAAAGTCCCTGGTTCCCCGCAGCTATGGGGCTGACGGGGAATTACAGCCCAAACCCCAGATGCTGGCTCTCAAACTAACAGTGAGCCCTCAGtgcccacagggagatacaatcagcgcactttccagatggggaaatgggatcagagaagtacaacagccttgcccaatgccccagaccagGGCTCCAGGCCCAGAGTGTTCTTTTGTCACTGTGTTCAGAGGGCAGCAGCTGTTGTGATGTACCCACCTGAGCCTGGCAGCTTTCTCCAACTTTGGAAGCCCAGGAGCATGGCCCCTGTCCACAGATGCACCTGGCATGAGGCGTGCCCAGAGGGACAGAGGCAGATGAGTTTCGTCTCCTCCACTGGATTGTGAGGGCCTAGAAGGAGACGAGGGTCTGCTTGGGAAGGCAGTGAATAGCGAGCAGCCTGAGGCAGTGCCCCTCTGGATGGATGCGCAGTGCCTGGATGGAACCTGGCTCAGACAGAGCTCAGTTCTGCAGGTCCCTGAGGCATGGAGAGTTcacagctaccaagcgtaggagtctggattcaaagccaacggcgtgactccaaagtccctgccctagcccctggaccaccctTGCAGGCCCATCAGATGCCCA
GGCCAGCAGCACAGCCGGCCAAGACCAGGGAAACTTGGGGAGCCTCAGAACACCCCCAGGTATTCCAACCTAACCCTGGTGCCCCGCCTCTCACCACCCTTCTTCCTGCTTTAACCTCAACCCCTACACAAAGCCTGGGCCACTTAATGTGGCATCAAACAGATGCCTCA
+
+a score=232090
+s hg18.chr1 162967 2659 + 247249719 ATAAATCAGTCTAATCTCGAAAATAAAAAAGACTTAACAGATATACAATTGCACGTTAGAATGCTAAAAACCATAAACATATAACAACTTAAAGTACATATAAATTCAATATATATCCAATCATTGTAACTATGACACAGTAGAATATTAAAATACTATTTTCAAAATGTATACAAGCTTAATGTTCTATGTATTCAAACTATTTATTCAAAATACAAATCATCAACATACATTGCCACTAATATTCAGTCCCTTCACAGGACA--TGATTCACTGGGAGTTAATAAATTAGCAGCCAGCAGGCAGTGACACACCGCAAAAATGAAAACCAAGAGGTGAAATAGTTCTGAAATAAAGGTTTTAAAGCTAACAGAAATCACTGAATTACTAAGTCATTAGCACTAATTTTGAGCCAACTAACTAATTAATATGAGATGATACAATGTCCTATACTTTGGTAAATACAGACTATGTTTAAACAATGTCTGTAACGTGACTTGTAAAATGCTCCTGGCTTTACAAAGATGTGATTAAGATGTAGTAACACATGCTAAACCATTTCCCCCTGCAGAGCATGTGGTAACTTTCATCAGTCACACTGAGAGTACAGAAGATAAAGGAAAAGGTCATGGATTTCGCTGAGAACTTACCAGAGTTGAACTCCCTCATTTTCCGTTCCCCAGCATTGGCAGGTTCTGGGACTGGTGGCTGTGGTGGCTCGTTGGTCTTTGTCTCTTAGAAGGTGGGGAATAATCATCATCTTGAAAAAGAAAAAATGGTCATTACTGAAGGAACCATCTTAGGTTACAGCCACCTCTGGGTCAATTCCCAACATTCAAAAGCTGAGCAGGGCTTTAAAGCTATCTTATTAATAATTATTTCTGTATTGCGAACTTCAGCATACTTTTTTCTAGTTACATTTGAAATGTTATTCTTTTGGGA
TGTGCTCAAGTGAGTACTGCTTTTTCCTCTGCCTTGCTTCATTACTTTTTAGTTTCCTTCATTTGAATCATCATTGTAAGTCTCCCCTTCTCCTCAAATAACTTTCAAATTGCTGCCAAGAACTACGTTCTATCTTAAGGCTTTTGAGAAAAAACTTTCAATGAAGATAGCCGCCTAAAGTTATACAAATATAGAAGAAACGGGATAAAATAAAGCTTAGATTGG-AAAAAATATTTAAGATTCTACAAAATTCACGCGTAAACAAGGGAAGCTGAGTAATTGTATGTTCAAATACTTTTAACAAGTGCAAAACATGTAGGCTTAAAGAAATAGAGCTggccaggcatggtggttcatgcctgtaattccaacagtttgggaggccaaggcaggcagataacttgaggtcaggaattcgagaccagcctggccaacagagtgaaaccctctctctactaaaaatacaaaaattaggccaggagtgatggctcacgcctgtgatcccagcactttgagaggccgaggcgggtagatcacctgaggtcaggagtttgagaccagcctaaccaacatagggaaaccccgtctctactaaaactacaacattagccgggtgtggtggcacatgcctgtaatcccagctactcgggaggctgaggcaggagaatcccttgaacccaaaaggcaaagattgtggtgagccgagattgtgccattgcactccagcctgggcaaaaacagcgaaactccgtctcaaaaaaaaaaaaaagaaaaaattagccaggcatgg-------------------------------------------------------------------tgaagttgcagtgagctgagactgcaccattgcactccagcctgggtagcagagcaagaccctgtctcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagagagagagagaaagaaagaaagaGGGCTACA
TTATTTATGAAACAGATACTGTTAACTCAGTCACCAGAAAGCCTGTGTATAAATGAGCAGTGAGATATTCAAGCACAGCACACACACACTTCTCAGGACAGCTGTCGTGAGTGTTCCATGCTCGTTTCCTTCTGGATACATCAGCAACTCACTCTGCTATGATCCTGCAATACATCTCATGTTAGAATTAGAGACATCTGggccaggcacagtggctgacgcctgtaatcctaacactttgggaagccgaggcaggcagatcacctaaggtcaggagttcgagaccagcctggccaacatggtgaaatgctgtctctaccaaaaatacaaaaaattagctgggcatggtggcgcgcgcctgtaatcccagctactcgggagcctgaggcaggagaatcgcttgaacccgggaggtggaggttgcagtgagccgagatcgtgccactgcactccagcatgggggacggagcaaggctctgtcaaaaaaaaaaaacagaaaaagaaaaagaaaaaAGAATTAGAGACATCTGGATCAAATCAGCTGCCAGTCTCGCAAAGTGTCGGGTAACATCCTATTAAGCTTGCTGCTTACACATCATCTATAAAATACTGAAAATATCATTTTAAGAAATCttttttttattttgagacagagttttgctcgttgcccaggctggagtgcaatggtgcgatctcagctcactgcaatctctgccccctgggttcaagcaattctccttcctcagcctcctgagtagctgggattacaggcatgcaccaccacgcctggctaatttt
+s panTro2.chr1_random 7293350 2697 + 9420409 ATAAATCAGTCTAATCTTGAAAAATAAATCTACTTAACAGATATACAACTGCACGTTAGAATGCTAAAGACAATAAACATATAACAACTTAAAGTACATATAAATTCAATATATATCCAATCATTGTAACTATGACACAGTAGAATATTAAAATACTATTTTCAAAATGTATACAAGCTTAATGTTCTATGTATTCAAACTATTTATTCAAAATACAAATCATCAACATAAATTGCCACTAATATTCAGTCCCTTCACAGGACACATGATTCACTGGGAGTTAAT----TAGCAGCTGGCAGGCAGTGACACACAGCAAAAATGAAAACCAAGAGGTGAAATAGTTCTGAAATAAAGGTTTTAAAGCTAACAGAAATCACTGAATTACTAAGTCATTAGCACTAATTTTGAGCCAACTAACTAATTAATATGAGATGATACAATGTCCTATACTTTGGTAAATACAGACTATGTTTAAACAATGTCTGTAACGTGACTTGTAAAATGCTCCTGGCTTTACAAAGATGTGATTAAGATGTAGTAACACATGCTAAACCACTTCCCCCTGCAGAGCATGTGGTAACTTTCATCAGTCACATTGAGAGTCCAGAAGATAAAGGAAAAGGTCATGGATTTCGCTGAGAACTTACCAGAGTTGAACTCCCTCATTTTCCGTTCCCCAGCATTGGCGGGTTCTGGGACTGGTGGCTGTGGTGGCTCGTTGGTCTTTGTCTCTTAGAAGGTGGGGAATAATCATCATCTTGAAAAAGAAAAAATGGTCATTACTGAAGGAACCATCTTAGGTTACAGCCACCTCTGGGTCAATTCCCAACATTCAAAAGCTGAGCAGGGCTTTAAAGCTATCTTATTAATAATTATTTCTGTATTGCGAACTTCAGCATACTTTTTTCTAGTTACATTTGAAATGTTATTCTTTTGGGA
TGTGCTCAAGTGAGTACTGCTTTTTCCTCTGCCTTGCTTCATTACTTTTTAGTTTCCTTCATTTGAATCATCATTGTAAGTCTCCCCTTCTCTTCAAATAACTTTCAAATTGCTGCCAAGAACTATGTTCTATCTTAAGGCTTTTGAGAAAAAACTTTCAACGAAGATAGCCTCGTAAAGTTATACAAATATAGAAGGAACGGGATAAAATAAAGCTTAGATTGGAAAAAAATATTTAAGATTATACAAAATTCACGCGTAAACAAGGGAAGCTGAGTAATTGTATGTTCAAATACTTTTAACAAGTGCAAAACATGTAGGCTTAAAGAAATAGAGCTggccaggcatggtggttcacgcctgtaattccaacagtttgggaggccgaggcaggcagataacttgaggtcaggaattagagaccagcctggccaacagaatgaaaccctctctcgactaaaaatacaaaaattaggccaggagtgatggctcatgcctgtgatcccagcactttgagaggccgaggtgagtagatcacctgaggtcaggagtttgagaccagcctaaccaacatagagaaaccccgtctctactaaaactacaacactagccagatgtggtggaacatgcctgtaatcccagctactcgggaggctgaggcaggagaatcccttgaacccgaaaggcaaagattgtggtgagccaagattgtgccattgcactccagcctgggcaaaaacagcgaaactccctctc-aaaaacaaaaaaagaaaaaattagccaggcgtggtggcgcatgcctgtaatcccagctacttgggaggctgaggcaggagaatcgcttgaacccaggaggctgaagttgcggtgagctgagactgcaccattgcactccagcctgggtagcagagcaagaccctgtctc----------aaaaaaaaaaaaaaaaaaaaaGAGAGAGAGAGAAAGAAAGAAAGAGGGCTACA
TTATTTATGAAATAGATACTGTTAACTCAGTCACCAGAAAGCCTGTGTATAAATGAGCAGTGAGATATTCAAGCACAGCACACACACACTTCTCAGGACAGCTGTCGTGAGAGTTCCGTGCTCATTTCCTTCTGGATACATCAGCAACTCACTCTGCTATGATCCTGCAATACATCTCATGTTAGAATTAGAGACATCTGggccaggcacagtggctgacgcctataatcctaacactttgggaagccgaggcaggcagatcacctaaggtcaggagttcgagaccagcctggccaacatggtgaaacgctgtctctaccaaagatacaaaaaattagctgggcatggtggcgcgcgcctgtaatcccagctactcgggagcctgaggcaggagaatcgcttgaacccgggaggtggaggttgcagtgagccgagatcgtgccactgcactccagcatgggggacggagcaaggctctgtcaaaaaaa--------------aaaaaaaaaaaaaaaTTGGAGACATCTGGATCAAATCAGCTGCCAGTCTCGCAAACTGTCGGGTAACATCCTATTAAGATTGCTGCTTACACATCATCTATAAAATACTGAAAATATCATTCTAAGAAATCtttttt---ttttgaaacagagttttgctcgttgcccaggctggagtgcagtggtgcgatctcggctcactgcaatctctgccccctgggttcaagcgattctcctgcctcaggctcctgagtagctgggattacaggcgcgcgccaccatgcccagctaatttt
+
+a score=90424
+s hg18.chr1 165626 1010 + 247249719 gtattttcagttgagacagggtttctccatattggtcaggctggtctcgaactcctgacctcaggtgatccactgaccttggcctcccaaagtgctgggattacaggtgtgagccaccatgcctagccAAGAAACCCTTATTTTAAAACAagccaggcgcggtggctcatgcctataatcccagcactttgggaagccaaggcaggtggatcacttgac-gtcagtagtttgagaccagcccgggcaacatgttgtaaccccatctctactaaaaatatattttaaaaattagctgggcatggtggtgggcacctgtaatcccagcttctcaggaggctgaggcaggagaaccacttgaacctgggaggtggaggttgcagtgagcggagatcacgccactgcactctagcctgggtgacaatagaaagactccatctcaaaaacaaaacaaaacaaaacaaaacaaaaAACCACTAAAAAAAAGACTCCATTTCAAAAACAAAACTAAAACCAAAAACACAACACAAATGTAGTACACAAATGAAGATAATTACTGTGTTAAACACAGTTTCATAGAAAATAAAAGACCAATCAAATACAATAAGCTGACTTTTTagatgggtatgttattcttctttcacagctaaagaaacaggctcagagaatgttatttgattggaccGTGTTGCATTTCTGGACAGTGCAGCTGAGATCAGACTTTGTGTGTAACTCCACTAGCCTACCAGGGTGCCTCTCATAAAGGTAAGAAATGTAAATTTGGCCTAATATACAAAGTTGCCAGGGCAGCACTGGGTCAATTCTACATACAGTACTTCTATGTTCATCAAGGGAAACCTTAAGGGAAAGTGAAAATGCTTCTAGAAGGCGACTGGACACCAGCGCCTTTGCTTGTTGCCTTTGGGCTCTTCTTCTAAGGCCAACAGTG
ACCTGAAATTATTGACTGGCTTTTCCAATCAAGTGGACAAAATGGTACCAAGGTCACCAACATC
+s panTro2.chr1 224080226 1004 + 229974691 gtattttcggtagagacagggtttctccatattggtcaggctggtctcaaactcctgacctcaggtgatccactgaccttggcctcccaaagtgctgggattacaggtgtgagccaccatgcctagccAAGAAACCCTTATTTTAAAACAagccaggcgcggtggctcatgcctataatcccagcactttggggagccaaggcgggtggatcacttgactatcagtagtttgagaccagcctggacaacatgttgtaaccccatctctactaaaaatatatttaaaaaattagctgggcgtggtggtgggcacctgtaatcccagcttctcaggaggctgaggcaggagaatcacttgaacctgggaggtggaggttgcagtgagtggagatcacgccactgcactctagcctgggtgacaacagaaagactccatctca-----aaaacaaaacaaaacaaaacaaaaAACCACTAAAAGAAAGACTCCATTTCAAAAACAAAACTAAAACCAAAAACACAACACAAATGTAGTATACAAATGAAAATAATTACTGTGTTAAACACAGTTTCATAGAAAATAAAAGACCAATCAAATacaataagctgcctttttagatggg--tgttattcttctttcacagctaaagaaacgggctcagagaatgttatttgattggaccGTGTTGCATCTCTGGACAGTGCAGCTGAGATCAGACTTTGTGTGTAACTCCACTAGCCTACCAGGGTGCCTCTCATAAAGGTAAGAAATGTAAATTTGGGCTAATATACAAAGTTGCCAGGGCAGCACTCGGTCAATTCTACATACAGTACTTCTATGTTCATCAAGGGAAACCTTAAGGGAAAGTGAAAATGCTTCTAGAAGGCGACTGGACACCAGCGCCTTTGCTTGTTGCCTTTGGGCTCTTCTTCTAAGGCCAACAGTG
ACCTGAGATTATTGACTGGCTTTTCCAATCAAGTGGACAAAATGGTACCAAGGTCGCCAACATC
+
+a score=3684
+s hg18.chr1 166636 39 + 247249719 GATGTAGAACATCGATGTTCTACAACATTGCTTAACGCA
+s panTro2.chr1_random 1501241 39 - 9420409 GATGTAGAACATCGATGTTCTACAACATTGCTTAACGCA
+
+a score=51959
+s hg18.chr1 166675 605 + 247249719 AGGGGAGACGCTCCTGACTCAGAGTGTTTAATTGCTCACCTACTTCTTTTTCTGCCCTCTTGGGCTTCTGAAATGAAAAGAACCCTGGGGTGATACAGTGAGTCAAAGGGGTGCCAGCCGCATCACAGCAAAATAGATTCCTAAAAAATCCCTGGCCTAAGATGACAGCCTTGGCTGGATCAGTTTGAATGTGCTGATAGTGGACATGGTAGAATGAAGGTGGTTGAAATGTTCATATTAAAGAACTTCCACCCAGATTGCAAGAAAAGAGAGAAGAATGGAGACGGCAGCACGAGCCCCTACAATAAAAGCAGATGTTTTGAGATCAGTTATATTTCTTCTGACAAAAATTAAAGACAGAAACCAAAGTTTAGCCTGAGACTACAATTAATTGGGCAATAAGCCAGAGGCACATATGGCATAAGACAGATTTAAACATTTCTCCCTGATATTAATACAAACACTAAAATTACAAATACTTTGATTCCaaataaaacaaatatttaaaaaatttaatGAATAAACACTGGGGTCTACAGTAGTATTTGA---AGATCTCACAAACAGGTTTGGTTTTTGAAGGTTAGAACTGGTGGTCTAGAGAATTC
+s panTro2.chr1_random 7554708 605 + 9420409 AGGGGAGACGCTCCTGACTCAGAGTGNTTA-TTGCTCACCTACTTCNTTTTCTGCCCTCTNAGACTTCTGAAATGAAAAGACCCCCGGGGTGATACAGGGAGTCAAAGGGGTGCCAGCCGCATCACAGCAAAATAGATTCCTAAAAAATCCCTGGCCTAAGATGACAGCCTTGGCTGGATCAGTTTGAATGTGCTGATAGTGGACACGGTAGAGTGAAGGTGGTTGAAATGTTCATATTAAAGAACTTCCACCCAGATTGCAAGAAAAGAGAGAGGAATGGAGATGGCAGCACGAGCCCCTA-AATAAAAGCAGATGTTTTGAGATCAGTTATATTTCTTCTGACAAAAATTAAAGACAGAAACAAAAGTTTAGCCTGAGACTACAATTAATTGGGCAATAAGCCAGAGGCACATATGGCAT-AGACAGATTTAAACATTTCTCCCTTATATTAATACAAATACTAAAATTACAAATACTTTGATTCCAAATAAAACAAATATTTTAAAACTTTAATGAATAAATACTGGGGTCTACAGTAGTATTTGAAGGAGATCTCACAAACAGGTTTGGGTTTTGAAGGTTAGAACTAGTGGTCTGGAGAATTC
+
+a score=16857
+s hg18.chr1 217280 205 + 247249719 GATTCATGGCTgaaatcgtgtttgaccagctatgtgtgtctctcaatccgatcaagtagatgtctaaaattaaccgtcaGAATATTTATGCCTGATTCATGGCTgaaattgtgtttgaccagctatgtgtgtctcttaatccactcaagtagatgtctaaaattaaccatcaGAATATTTATGCCTGATTCATGGCTgaaatcac
+s panTro2.chrUn 47945019 205 - 58616431 GATTCATGGCTgaaatcgtgtttcgccagctatgtgtgtctcttagtccagtcaagtagatgtctaaacttaaccatcaGAATATTTATGCCTGATTCGTGGCTgaaattgtgtttgaccagctatgtgtgtcccttagtccagtcaagtagatgcctaaagttaaccatcaGAATATTTATGCCTGATTCATTGCTgaaatcgt
+
+a score=175275
+s hg18.chr1 217485 2070 + 247249719 gtttgaccagctatgtgtgtctcttaatccagtcaagtagatgtctaaaattaaccatcaGAATATTTATGCCTGATTCATGGCTgaaatcgtgtttgaccagctatgtgtgtctctcaatccgatcaagtagatgtctgaaattaaccatcaGAAtatttatgcctgattcatggctgaaatttcaggatgaaagctatgaaatctctatttgtgtttgtgtatctattaatgtatgttatgtatatgtgatattttcttaactccagagagcattgcaaaattcatttatgaaaacctctaaaagtgctctattctaacttggcttggaaaaaaataagcatttataaataaatattcaccaaactcctagaaatataggaactgatcaaatgtttcttaagttaacatgatttggataaaacttagttaaataagattaatatagtatttttggtgtaataaaacaactatatcttcaaaattatcattattgaatataaaacaagcataaattcctattctgcttgagttctagtcaaataagctaatattatacttactagaaacgtaaaatcttaaagcttatagatttgattctaaTTAAGTTGTCATTCTTATGAAAAACATTATTTTTTTTATGCTGAAAAGATACACATATATTTAGAGTTAGCCAGCTGGACTCAGTTTAGGTGATCCCAATTTTGTTACAACATCGAAAGCATCATAATCAGGAGCAAGTCGAACATATGCCTTCT---CTTTATCAGGACAAATCAGGGTGGTGACCTTGGCCACATCACTGTCATAGAGCTTCTTCACAGCCTGTCTGATCTGGTGCTTGTTGGCTTTAACATCCACAGTGAACACAAGCGTGTTGTTTTCTTCTATCTTCTTCACGGCCGACTCAGTGGTCAGCGGAAACTTGATGATAGCATAGTGGCCAAGC
TTGTTTCTCCTGGGGGTGCTCTTCCGAGGATATCTGGGCTGCCTCCGGAGTCGCAGTGTCTTGGGCCGCCTGAAGGTGAGTGACATGCGGATCTTCTTTTTTGCGTGTGGCTGCGGACACCTTTCAACACTGCCTTCTTGGCCTTTAAGGCCTTCGCTTTGGCTTCGGCTTTAGGAGGAGCAGGAGCTTCCTTCGCTTTCGGTGCCGTCTTGTGAAAAGCGAAAAACATTATTTCAAAAATAATTTGTTTACAGTAAATCTgcctaagaatagtttccaaagtacttttggtaatttttaaccttaaagttaagctaagtaaaagatttgcattaaatatctagaccatttataaataagatacaatactaaaacattaattactgaacataaataattcaagtttatatacttttggcttcctgtttttacagagagactaaagatattttggcccgttaataaacatgtttttttctgccacactgaggaattgtattatgagaaaacacatccctctagatgttgggagatggtatattcatacattttctaacctactatagaatgctaatatatgacagtttataaccgtctacttcctagttttctctggaaaataaaagattactaagtattaaaattataatcaatatatgtaaataaaactactagaaataatagaataactagaaacaactctatgcaaagcatgcaagaaaagtagggcatgtttcgcaagtaaagtaggttgcattttttataaggaaaaCCATACAGAAGATAcaaataaaaagagatacctaaccttccctgtgttatatttgtatgggtaaaatgttatgttttcagaaattatataaaattcctggaagtttgtcaatgtcctccttatccatgctatgtgccactatagagtaatgagtcataattccaattattactttaaatgttgtgccaggcacagtggctcatgcctataatcccag
cactttaggaggctgaggcgggtggatcacaaggtcaggagatccagaccatcctggttaactcggtgaatctccatctctattaaaaatataaaaaattagccgggcgtgatggaaggcacctgtagtcccagc
+s panTro2.chr19 196757 2066 + 64473437 gtttgaccagctgtgtgtgtcccttaatccagtccagtagatgtctagaattaaccatcggaatatttatgcctgattcatggctgaaatcgtgtttgaccagctatgtgtgtctcttaattcagtcaagtagatgtccaatattaaccatcaGAAtatttatgcctgattcatggctgaaatttcaggatgaaagctatgaaatctctatttgtgtttgtatatctattaatgtatgttatgtacatgtgatattttcttaactccggataccactgcaaaattcatttataaaatcctctaaaagtgctctattccaacttggcttggaaaaaaataaccatttataaataaatattcaccaaactcctagaaacatagtaactgatcaaatgtctcttaagttaccatgatttggataaaacttagttaaatgagattaatataatatttttggtgtaataaaacaactatgtcttcaaagttatcactattgaatataaaacaaacataaattcctattctgcttgagttctagtcaaataagctaatattatacttac-agaaatgtaaaatcttaaagcttatagatttGGTTCTAATTAAGTTGTCATTCTTATGAAAAACATTATTTTTT--ATGGTGAAAAGATACACATATATTTAGAGTTAGCCAGCTGGGGTCAGTTTAGATGATCCCAATTTTGTTGCAACATCCAAAGCTTCATAATCAGGAGCCAGTTGAACATATGCCTTCTTCTCTTTATCAGGACAAATCAGGGTGGTGACCTTGGCCACATCACTGTCATAGAGCTTCTTCACGGTCTGTTTGATATGGTGCTTGTTGGCTTTAACATCCACAAAGAACACAAGCATGTTGTTTTCTTGTATCTTCTTC-CAGCCGACTCAGTGGTCAGTGGAAACTTGAT---AGCATAGTGGTCAAGC
TTGTTTCTCCTGGGGGTGCTCTTCCGAGGATATTTGGGCTGCCTCCGGAGTCGCAGTGTCTTGGGCCACCTGAAGGTGAGTGATATGCAGATCTTCTTTTTTGCGTGTGGCTGTGGACACCTTTCAACACTGCCTTCTTGGCCTTTAAAGCCTTCACTTTGGCTTCGGCTGTAGGAGGAGCAGGAGCTTCCTTCGCTTTCGGTGCCATCTTGTGAAAAGTGAAAAACATTATTTCAAAAATAATTTGTTTACAGTAAATCTgcctaatagtagtttccaaagtacttttgctaatttttaaccttaaacttaagctaagtaaaagatttgcattaaatatctagaccatttataaataagatacaatactaaaacattaattactgaacataaataattcaagtttatatacttttggcttcctatttttacagaaagactaaagatattttggcctgttaataaacatgtttttttctgccacattgagaaattgtattatgaggaaacgcatccctctagatgttgggagatggtatattcatacattttttaacctgctatagaatgctaatatatgacagtttataactgactacttcctagttttctctggaaaataaaagattactaagtattaaaattataatcagtatatgtaaatagaactactagaaataatggaataactagaaacaaccccatgcaaagcatgcaagaaaagtagggcatgtttcgcaagtaaagtaggatgtattttttataaggaaaaCCATACATAAGATAcaaataaaaagagatacctaaccttccctgtgttatatttgtatgggtaaaatgttatgttttcagaaatgatataaaattcctggaaatttgtcaatgtcctccttatccatgctatgtgccagtatagggtaatgagtcataattccaattattattttaaatattgtgctgggtgcagtggcttacacctgtaatcccag
cactttgggaggctgaggaggatggatcacaaggtcaggagatccagaccatcctggctaacccggtgaatctccatctccactaaaaatataaaaaattagccggctgtggtggcaggcacctgtagtcccagc
+
+a score=13860
+s hg18.chr1 219555 161 + 247249719 tactcgggaggctgaggcaggagaatggcgtgaacccaggagacagagcttgcagtgagccgagatcgcactgctgcactccagcctgggcgacagagcaagactctgtctctaaataaataaataaataa----atgttgtctgccacagaaaaaatcgaatAT
+s panTro2.chr3 77587300 165 + 203962478 tacttgggaggctgaggcaggagaatggcgtgaacccgggagacagagcttgcagtaagccgagatcgcaccactgcactccagcctgggcgacagagcgagactctgtctctaaataaataaataaataaatatatgttgtatgccacagaaaaaatcgaatat
+
+a score=33729
+s hg18.chr1 219723 401 + 247249719 gaaaccccgtctctaccaaaaatacaaaaattagatgggcaggacggcatgtgcctgtagtcccaggtaatcaggaggctgaggagggaggatcgtttgcacccaggaggtagaggttgcagtgagctgacattgcacctttgcactccagcctgggcgatagagccagaccctgtctcaaaaaaaaTTTTTTT-AAATgaaaactatagccattgtgagttatcagattctagtcttgtttcttgtttctgggctatttttacctctttgtaaactggatcctgccatctgatgaattttGTCCCACAATGATACTTGGGGAACAAGAAGCCAAGTATTGTCTCTCCTACTAATGTATCTATTGTCAGTTAATTTGAAGGTCTCCAACCCTGGAACAAAGT
+s panTro2.chr19 200660 402 + 64473437 gaaaccccatctctaccaaaaatacaaaaatgagatgggcatgatggcatgtgcctgtagtcccagctaatcaggaagttgaggagggaggatcacttgcacacaggaggtagaggttgcagtgagctgagattgcacctttgcaccccagcctgggcaacagagccagaccctgtctcaaaaaaaattttttttaaaggaaaactatagctattgtggattatcagattctagtcttgtttcttgttttggggctatttttacctctttgtaaactggatcctgccatctgatgaattttGTCCCACAATGATACTTGTGGAATAAGAAGCCAAATATTGTCTCTCCTACTAATATATCTATTGTCAGTTAATTTGAAGGTCTTCAACCCTGGAACAAAgt
+
+a score=23697
+s hg18.chr1 220124 270 + 247249719 TAGAAGAGGAAGGTTCTACTCCCCAAaatgcataaccaaattgtgctacattcatgtaatggaatactatttagccatagaaaggaacaagatatcaacacacacaaagacatgagtgaatcttgcatgcacattgctaagtggaagaagacagtctgaggaggatacacatagtgtgacctcatttaatgagacactggggaaggcaaactacacagatgggaagccattggctccatggggtgggggtttgaggcattccatatgata
+s panTro2.chrUn 1540276 270 + 58616431 TAGAAGAGGAAGGTTCTGCTCCCCAAaatgcataaccaaattgtggtacattcatgtaatggaatactatttagccatagaaaggaacaagctatcaactgacacaaagacatgagtgaatcttgcatgcacattgctaaatggaagaagacagtctgaggaggatacacacaatgtgatctcatttaatgagacactggagaaggcaaactatacagatgggaagccattggctccatggggtgggggtttgaagcattccatatgata
+
+a score=49220
+s hg18.chr1 220394 611 + 247249719 ctttaatagtgggatatctgccacaatgcatttgtcgaaatatgcagaattttacagccaaatggttaaagcaaactctattcaaattaaatcaaattactcaggatgtggagtatcccaggacagaatacatcatgtgaaaaagaatttatgctacaaattacgatggtttggatgtggtttgtccccacaaaaactcatgttgaaatttgactcccactgtgtcagtgtggggcggtggggcctagtggacggtgtttgggtcgtggggacggatccctcatgaaaggattaatgtcctccatgggggtgagtgagttctgttctcacaggaatagat-aattcctgcaggagcaggtaattaaaaagagtctggcttccttggcttccctcttgctttcacttctgctatgtgatctctggtgcaccccttgctccccttccactttccaccatgaggtgaaaaagactgaggccccgccagatgcaactgcccaatctcagacattccagccaccagtattgtgaaccaaatgaaacttttttacttataaattacgcagcctcaggtattctgttacagaagcacaaaatggactaagacacaaatc
+s panTro2.chrUn 56831951 612 - 58616431 ctttaatagggggatatctgccacaatgcatttatcaaaatacacagaattttatgaccaaatgggtaaatcaaactctattcaaattaaacaaaattactcaggatgtggagtatcccaggacagaatgcatcacgtgaaaaagaatttatgctacaaattactatggtttggatgtggtttgtccccgcaaaatctcatgttgaaatttgacccccaatgtggcagtgtgaggcggtggggcatagtggatggtgtttgggtcatggggacggatccctcatgaatagattaatgtcctccacagggatgactcagttctgctctcataggaatggattaattcctgcaggagtgggtaattaaaaagagtctggcttccttggcttcccttttgctttcacttttgctatgtgatctctggtgcaccccttgctccccttccgctttccaccatgaggtgaaaaagactgaggccccaccagatgcaactgcccaatctcagacattccagctactagtattgtgagccaaatgaatcttttttacttataaattagccagcatcaggtattctgttacagaagcacaaaatggactaggtaaaaactc
+
+a score=282229
+s hg18.chr1 221014 3176 + 247249719 actttgaaaatgaatagaatctgtaggctgaaggcacatgaactatacttcattattggattccattttataaagttctttccaacagaagcaattgtgaacaattgtaaaaccacagtgtctgtatctggagtaaaacaatgacttacataagtcgcagatggtgggaaccagctttctcactgttgaagtgggaggttacaaattagcaagacgagaaggctagaatgattcctgtgatagtagatcagaggtggagacatcaacgtaaacttatgcttagtttaatatagatacacacagttctacatagaaaactttataattaggtgtgtgtaggtaggttagacacgcacatatacttcctagcattgctaatgagggacaagatacaatgtgcattcagcagccacatgtaagttttcccaccattctgaaaggaatcaggctctttgaagaaatgtctgatactagaactgggacagtaaatataggagccaggataatctggaagtatcagaaagtaagtactaaaaaaattaaaatatatcaaacaaaaataaaagccaataaaaacagctaccgatggccaacacaggaaggaattgtgcaacataatgctatagtgtcaaataataactaaagcttaaagtaattatctaggtgtctgtatttgtatacctaggtgaataagcaaatggagttgcatagaaatctcctttgcaaaagaattccaaataactgatgtagacactcagccatcaagaaggtggagccaactcctcactccgtaagtgtgggctctgcatagtgacttgctccaaaagaacacatgcagtacggacaaggaggaaaaataacttcacagtggagaaatctgacaaacagtagctctgccaaatgatccaagtgaatatcaaagctgacagttcaccttgagaacatga
agtgacaatggggggcattctacaaaattcctgaccaatcctcctcagtgctatgaaggtcatcatgagatggaaagcctgacacactgtcacagccaggaagagcctatgtgatgactacatgccgtgcgggatcctggatgggatcctgggtcagagtaagatagaactaagggaatccaaatgaaatatgaacttcagttaataacagtctatcagtattggttcattaactgcggcaaattatgtaagatattaataagccatgtgagacacactgatagaagatgttaataagagaggaaactaggttgcggctacatgggaaatctctgctttttttttttgacgatttctgtgtaagtaaaaaaaagacgtaaaataaaactttatttaaaaCACAGTTTTTTTAACACTTCCTTGTTTAATTATTTATACCATGAATTACTAGTAATTGACACTGTTAACTAGTCCTGTTTTTTAAAATAAGAGCAATTATGACACAAAAAATTAAACAGTGCAGACTGATATATAAATCAAAACAAATGTCCTTTACATGTTTTCTGTTACAGTAGTAACA-ATATGTGTAAACTTAATTATCATATTTTTTTCTTGTGCTGTGGTTGTGTCCTGGGTTCATTCTCTAAAATGCTGTTCACCTTAGACCAGGAAAAATATTAACCATACAGACTCTGTTTCAAGTCATAGCTGAATATTTTCAAAAGAGTGACTTTGTAAAAACATGTTCCAATGGCAAATTGATTCATTGTGATGGGATCAATTATTCCAAAGACTTCTTGTCTTTATTTTGTTCCCATGCCTACCTTTTAGCCATAATACAACAGAATCAAATATTGGCCACTGGGAAAAAA--TATTCAAAGAAAGAAAGAATGTGAACAGAACTTATGACCATGATGATTCAATGTTTTACCACAATGCTTTCTAAAACAAAAGAGTCTAAAAGGATATTCAAAGTCAATTTCCTC
AGCGAGGATTTGCAGAAAATGAGGAAACTAGAAAAACAAAAATGGCGGGACATTCTACGGGTGATTTTAAATGTTGCTATGTTTTATGGGAAAAAATACTTTACCTTTTAAAGAATCACAAAGAATTATTGGAAACCCAAACTCTGGAATGTTTGCAAATTTAGTTGAGCTTCTGTGTAATTATGTCTATATAGGTAGCCATGAAGTTGATGATTTCTTAAAAATCTGTGCCTTATTTGTGTAATAAAAGACACAATGAATAATTAATACTCATAGGAACACTTACgaagggaaaataaatcttggggactcaaaatcactaagctaaagggaaaagtcaagctgggaactgcttagggcaaacccgcctcccattctatccaaa-acacccgtctgatcacctagataaatgcatacctgattgcctcacatggagagggtaatcagcaatgcaaaagaatgaaaccatttgtctcttacctacctgtgacctggaagccccctgtctggccttctcacctttctggactgaaccaatgtacatcttacacgtattgattgatctctcgtgtctccctaaagtgtataaaaccaagctgtgccccgaccaccttgggcccatgttgtcaggatctcctgaggaggcatcacaggcgcacatcctcaagattggcaaaataaactttctaaaaaatctgagagctgtctcagattttcagggttcacaCATGTAATGTAGGATGTCAATGTTTATAAAAGGGATGTTATTCTATCTACTATTAGAAATATGCTGTCAATTAACCTTAAACTTTCTCAACACAATAAAAAATGTTGATGAGGTACAAATAATATATCTAGGCTTAAATAGTGTTGCAAGTTTTAATATGCCTACTTTTCAATTTTTCAATACTATCTTTACTAATTTAACACTGTAAGAAAAATGAGTAATTAAAACATGAATAAAAGTGTTTACAGGGGATGCACATGT
TTCCTCCAGCCTCTGCCTATACCCAACTTTCATCCCAACTGTCCTGATGGTGGCTCTAAGCATTTCTCCTTTCTCTATACCAAGATATCTCCCCAGAAACAAACCCAAATCTTACTATATGTTATGGCACGCTATGATGATGAGCAGCGATGAGCAGCCGAAGCCTCAAGGAAGGGATGCTTTTGTAAAACAAGACTTGTGGAATATAACATGTGAAAGTAAAGCCCATGGCAGAACTCCCTCCTCAGCACACGG
+s panTro2.chrUn 56832599 3177 - 58616431 actttgaaaatgaatagaatctgtaggctgaag-cacatgaactacacctcatcattggattccattttataaagttctttcca-cagaagcaattgtgaacaattgtaaaaccacagtgtctgtatctggagtaaaacaatgacttacataagtcgcagatggtgggaaccagctttctcactgttgaaatgggaggttacaaattagcaagacgagaaggctagaatgattcctgtgatactagatcagaggtggagacatcaacgtaaacttatgtttagtttaatgtagatacacacagttctacatagaaaactttataattaggtgtgtataggtaggttagacacacacatatacttcctagcattgctaatgagggacaagatacaatcttcattcagcagccagatgtaagttttcccaccattctgaaaggaatcaggctctttgaagaaatgtctgatactagaactgagacagtaaatataggagccaggataatctggaagtatcagaaagtaagtactaaaaaaattaaaatatatcaaagaaaaataaaagccaataaaaacagctaccgacggccaacacaggaaggaattgtgcaacataatgctatagtgtcgaataataactaaagcttaaagtcattatctaggtgtctgtatttgtatacatagctgaataagcaaatggagttgcatagaaatctcctttgcaaaagaattccaaataattgatgtagacactgagccatgaagaaggtggagccaactcctcactccgtaagtgtgggctctgcatagtgacttgctccaaaagaacacatgcagtacggacaagcaggtaaaataacttcacagtggagaaacctgacaaacagtagctctgccaaatgatccaagtgaacatcaaagctgacagttcaccttgagaacatgA
AGTGACAAtggggggcattctacaaaattcctgaccaatcctcctcagtactatcaaggtcacc-tgagatggaaagcctgacacactgtcacagccaggaagagcccacgtgatgactacatgtcatgcgggatcctggatgggatcctgggtcagagtaagatagaactaagggaatccaaatgaaatatgaactttagttaataacagtctatcagtattggttcattaactgtgacaaattctgtaagatattaataagccatgtgagacacactgatagaagatgttaataagagaggaaactaggttgcggctacatgggtaatctctgcttttttttttggacgatttctgtgtaagtaaaaagaagatgtaaaataaaactttatttaaaaCACTGTTTTTTTAACACTTCCTTGTTTAATTATTTATACCATGAATTACTAGTAATTGACACTGTTAACTAGTCCTGTTTTTTAAAATAAGAGCATTTATGACACAAAAAATTAAACAGTGCAGACTGATATATAAATCAAAACAAATGTTCTTTACATGTTTTCTGTTACAGTAGTAACACATATGTGTAAATTTAAGTATCATATTTTTTTCTTGTGCTGTGGTGGTGTCCTGGGTTCATTCTCTAAAATGCTGTTCACCTTAGACCAGGAAAAATATTAACGTTACAGACTCTGTTTCAAGTCATAGCTAAATATTTTCAAAAGAGTGACTTTGTAAAAACATGTTCCAATGGCAAATTGATTCATTGTGATGGGATCAATTATTCCAAAGACTTCCTGTCTTTATTTTCTTGCCATGCCTACCTTTTAGCCGTAATACAACAGAATCAAATATTAGCCACTGGGAAAAAAAATATTCAAAGAAAGAAAGAATGTGAACAGAACTTATGACCATGATGATTCAATTTTTTACCACAATGCTTTCTAAAACAGAAGAGTGTAAAAGGATATTCAAAGTCAATTTCCTC
AGCGAGGCTTTGCAGAAAATGAGGAAACTAGAAAAACAAAAATGGCAGGACATTCTACGGGTGATTTTAAATGTTGCTATGTTTTATGGGAAAAAATACTTTACCTTTTAAAGAATCACAAAGAATTATTGGAAACCCAAACTCTGGAATGTTTGCAAATTTAGTTCAGCTTCTATGTAATTATGTCTATATAGGTAGCCATGAAGTTGATGATTTTTTAAAAATCTGTGCCTTATTTGTGTAATAAAAGACACAATGAATAATTAATGCTCATAGGAACACTTACgaagggaaaataaatcttggagactcaaaatcactaagctaaagggaaaagtcaagctgggaactgcttagggcaaacccgcctcccattctatccaaagacacccgtctgatcaccgagataaatgcatacctgattgcctcacgtggagagggtaatcagcaacgcaaaagaatgaaaccatttgtctcttacctacctgtgacctggaagccccctgtctggccttctcacctttctggactgaaccaatgtacatcttacacatattgattgatctctcgtgtcttcctaaagtgtataaaaccaagctgtgccccgaccaccttgggcccatgttgtcaggacctcttgaggaggcatcacgggcgcacatcctcaagactggcaaaataaactttctaaaaaatctgagagctgtctcagattttcagggttcataCATGTAATGTAGGATGTCAATGTTTATAAAAGAGATATTATTCTATCTACTATTAGAAATATGCTGTCAATTAATCTTAGACTTTCTCAACAAAATAAAAAATGTTGATGAGGTACAAATAATATATCTAAGCTTAAATAGTGTTGCAAGTTTTAATATGCCTACTTTTCAATTTTTCAATACTATTTTTGCTAATTTAACACTGTAAGAAAAATGAGTAAATAAAACATGAATAAAAGTGTTTACAGGAGATGCACATGT
TTCCTCCAGCCTCTGCCTATACCCAACTTTCATCCCAACTGTCCTGATGGTGGCTCTAAGCACTTCTCCTTTCTCTATACCAAGATCTCTCCCCAGAAACAAACCCAAATCTTACCATATGTTATGGCACGCTATGATGATGAGCAGCGATGAGCAGCCGAAGCCTCAAGGAAGGGACGCTTTTGTAAAACAAGACTTGTGGAATATAACGTGTGAAAGTAAAGCCCATGGCAGAGCTCCCTCCTCAGCACACGG
+
+a score=5815
+s hg18.chr1 224190 71 + 247249719 GGAGCAGACAGGAAGCTGTTGCCTCACCTTCCTCAATGGCCTACAGCCACATCTCCCCAGGTCAGTCTTAA
+s panTro2.chr3 77593762 70 + 203962478 GGAGCAGACAGGAAGCTTTTGCCTCACCTTCCTCAATGGCCTGTAGCCACATCT-CCCAGGTCAGTCTTAA
+
+a score=101136
+s hg18.chr1 224261 1125 + 247249719 GGACAATGAAACTCTGGTCTTCACTGTGGACACACCACACTACCAGGCGCTCCAAAGCCATGGTGACCCACCCTCGGGTGGGTCCTGAGGAGAACAAAGCTCTGGTTCTAATTCTAACCCTAACCTTGTCCCAAGACTTTGACACTGAACCTAAATCCTGATCCCTATCCTGGTccctaattctgacccttactttgaccctgactttgatctcgaccctgaccatgaccccacctctaaccatacttctggccctgactctgacccagatcctaatcctatccctaaccctaTTATTATCTTTACAATCTATGTCTAATCTTACCCTCTAGTGCTAAATAGCTGTACCCAAAAGCACTTTAAAATTATTTAACTTCTTTTCCTTGAATTCTCTAAGGACATCCTAAAGGAGATGTCAATATGTATTTTGCATTCCCTCTGAGTGGTATGGCTTCAGATAAGAAGTTCTAATACTTTGCAAGACATAAAAAGTTTGGAGGGTGACAGCACTGGGTTGTTAGGGATGCATGTTGGCATTCgtggtagtcataggtgctgttctccagatattttcagttcatattttatgaatgcattctgactgttccatcccgcctacttacattttcacatggccacatgactttttttttgccaatggaggtgagaagaaataacatgtgactttttcaggagaaatctccaagaaacagagtgctattccgcatacttttttctcttttctatagcaatggggatcttattgattgtccctccttccgtctggattcctgtgttaggatgacacagcacagagctacctctcacctgacccatgatgaaatgtaaataaatgaggaagaagatttttgagccactgaaatttggaggttgtttgtcaccacagtttaacctagcccccatttactgatgcaCGGCTGAAGAAT
GAGTCCGAACTGGATCTGGACAAGACATGTGAAGAGCGCTCCAGGCTGAGTAAAATTCAAGTGTTGTCTCAAAGATAACACTGAGCACGATATGTTATTGGGGTGGGTGTGGGATAAATAAGGTATATCAGGTGAGAATAACAAGAAACTCAACTTTAAAAGACGGTGCCGATTTGGA
+s panTro2.chrUn 56835776 1123 - 58616431 GGACAATGAAACTCTAGTCTTCACTGTGGACACGCCACACTACCAGGTGCTCCAAAGCCATGGTGACCCACCCTCGGGTGGGTCCTGAGGAGAACAAAGCTCTGGTTCTAATTCTAACCCTAACCTTGTCCCAAGACTTTGACACTGAACCTAAATCCTGATCCCTACCCTGGTccctaattctgacccttaatttgaccctgactttgatcttgaccctgaccatgaccccacctctaaccatacttctggccctgactctgacccagatcctaatcctatccctaaccctaTTATTATCTTTACAATCTATGTCTGATCTTACCCTCTAGTGCTAAATAGCTGTACCCAAAAGCACTTTTAAATTATCTAACTTCTTTTCCTTGAATTCTCTAAGGACATCATAAAGGACGTGTCATTATGTATTTTGCATTCCCTCTGAGTGGTATGGCTTCAGATAAGAAGTTCTAATACTTTGCAAGACATAAAAAGTTTGGAGGGTGACAGCACTGGGTTGTTAGGGATGCATGTTGGCATTCgtggtagtcataggtgccgttctccagatattttcagttcatattttatgaatgcattctgac--ttccatcccacctacttacattttcgcatggccacatgactttttttttgccaatggaggtgagaagacataacatgtgactttttcaggagaaatctccaagaaacagagttctattccgcatgcttttttctcttttctatagcaatggggatcttattgatcgtccctccttccgtctggattcctgtgttaggatgacacagcacagagctacctctcacctgaccagtcatgagatgtaaataaatgaggaagaagatttttgagccactgaaatttggaggttgtttgtcaccacagtttaacctagcccccatttactgatgcaCAGCTGAAGAAT
GAGTCCGAACTGGATCTGGACAAGACATGTGAAGAGCGCTCCAGGCTGAGTAAAATTCAAGTGTTTTCTTAAAGATAACAGTGAGCACGATATGTTATTGGGGTGGGTGTGGGATAAATAAGGTATATCAGATGAGAATAATAAGAAACTCAACTTTAAAAGACGGTGCTGATTTGGA
+
+a score=17379
+s hg18.chr1 225388 189 + 247249719 ACACCAAATTGGAAGACAGCAGGAGCTGCCCCATAATACCAGTAAAGTGAGAAGCAGAGATAAACTAGTCCTAGACAGCTGACTCATGTTGGGGGCAGCCCACTCACAGTGGCCCTGACCCAACTCTGACTAGAGGCCACTTGATCTCAACACCAGGGTGCTCAATGGCCCGTCCTGGTACTCTGCTCT
+s panTro2.chrUn 56816265 189 - 58616431 ACACCAAATTGGAAGACAGCAGGAGCTGCCCCATAATACCAGTAAAGTGAGAAGCAGAGATAAATTAGTCCTAGACAACCGACTCATGTTGGGGGCAGCCCACTCACAGTGGCCCTGACCCAACTCTGACTAGAGGCCACTTGctctcaacaccagggtgctcaatggcccgtcctggtactctactct
+
+a score=80560
+s hg18.chr1 225577 931 + 247249719 ACACTGGTTGTAGGAAGGAATCTGCAGGTTGAAATAAGGAGATCATTTCCCTGAGGTTCCGAAGCTCATATTTACTCACCATTTGTTGTTTACTGCTAATGTTGAGCACTGTCAGTAAAATACATAAAACCCtttgccaatccaggaagtgaaaatgacactttactgttttaatttgcatttctctgcttacaagtggattacacacattttcgtgtgctgttggctacttattcattcagaaaacatactaagtgctggctctttttcatgtcctttatcaagtttggatcatgtcatttgctattttcttTCTGATGTAAACTCTCAAAGTCTGAAGTGTATTGTCTTTTCCTGACACATATGTTGTAAATAATTTTCTGGCTTACATTTTGACTTTTAATTTCATTCACGATGTTTTTAATGAATAATTTTAATTTTTATGAATGCAAGTTAAAATAATTCTTTCATTGTGGTCTCTGACATGTCATGCCAATAAGGGTCTTCTCCTCCAAGAGCACAGAAATATTTGCCAATACTGTCCTTAAAATCGGTCACAGTTTCATTTTTTATATATGCATTTTACTTCAATTGGGGCTTCATTTTACTGAATGCCCTATTTGAAGCAAGTTTCTCAGTTAATTCTTTTCTCAAAGGGCTAAGTATGGTAGATTGCAAACATAAGTGGCCACATAATGCTCTCACCTCctttgcctcctctcccaggaggagatagcgtccatctttccactccttaatctgggcttggccgtgtgacttgcactggccaatgggatattaacaagtctgatgtgcacagaggctgtagaatgtgcacgggggcttggtctctcttgctgccctggagaccagctgccccacgaaggaaccagagccaacctgctgcttcctggaggaagacagtccctct
+s panTro2.chr1_random 7323839 929 + 9420409 acactggctgtaggaaggaa-CTACAGGTTGAAATAAGGAGATCATTTCCCTGAGCTTCCGAAGCTCATATTAACTCACCATTTGTTGTTTACTGCTAATATTGAGCACTATCAGTAAAATACATAAAACCCtctgccaatccaggatgtgaaaatgacactttactgttttagtttgtatttctctgcttacaaatggaatacacacattttcatgtgctgttggctacttATTCATTCAGAAAACTTA-TAACTGCTGGCTCTTTTTCATGTCCTTTATCAAGTTTGGATCATGTCATTTGCTGTTTTCTGTCTGATGTAAACTCTCAAAGTTTAAAGGGTATTGTCTTTTCCTGACACGTACATTGCGAATAATTTTCTGGCTTACATTTTGACTTTTAATTTCATTCACGATGTTTTTAATGAATAATTTTAATTTTTATGAATGCAAGTTAAAATAATTCTTTCATTGTGGTTCCTGACATGTCATGCAAATAAGGGTCTTCTCCTCCAAGAGCACAGAAATATTTGCCAATACTGTCCTTAAAATCGGTCACAGTTTCATTTTTTATATATGCCTTTTACTTCAATTGGGGCTTCATTTTACTGAATGCCCTATTTGAAGCAAGTTTCTCAGTTAATTCTTTTCTCAAAGTGCTAAGTATGGTAGATTGCAAACATAAATGGCCACATAATGCTCCCACCTCctttgcctcctctcccaggaggagatagtctccatctttccactccttaatctgggcttggccatgtgacttacactggccaatgggatattaacaagtctgatgtgcacagaggctgtagaacgtgcactggggcttggtctctcttgctgccctggagaccagctaccccacgaaggaaacagagccaacctgctgcttcctggaggaggacagtccctct
+
+a score=5330
+s hg18.chr1 226508 59 + 247249719 gtccctctgtctctgccaaccagttaacctgctgcttcctggagggagacagtccctca
+s panTro2.chr1_random 8583060 59 + 9420409 GTCCCTCTGTCTCTGCCAACCAGTTAACCTGCTGCTTCCTGGAGGAAGACAGTCCCTCT
+
+a score=223737
+s hg18.chr1 226567 2476 + 247249719 gtccctctgtctctgccaaccagttaacctgctgcttcctggaggaagacagtcactctgtctctgccaacccagttgaccgcagacatgcaggtctgctcaggtaagaccagcacagtccctgccctgtgagccaaaccaaatggtccagccacagaatcgtgagcaaataagtgatgcttaagtcactaagatttgggCAAAAGCTGAGCATTTATCCCAATCCCAATACTGTTTGTCCTTCTGTTTATCTGTCTGTCCTTCCCTGCTCATTTAAAATGCCCCCACTGCATCTAGTACATTTTTATAGGATCAGGGATCTGCTCTTGGATTAATGTTGTGTTCCCACCTCGAGGCAGCTTTGTAAGCTTCTGAGCACTTCCCAATTCCGGGTGACTTCAGGCACTGGGAGGCCTGTGCATCAGCTGCTGCTGTCTGTAGCTGACTTCCTTCACCCCTCTGCTGTCCTCAGCTCCTTCACCCCTGGGCCTCAGGAAATCAATGTCATGCTGACATCACTCTAGATCTAAAAGTTGGGTTCTTGgaccaggcgtggtggctcacacctgtaatcccagcactttgggaggccgaggcgggtggatcacaaggtcaggagatcaagacgattctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgggtgtggtggcaggtgcctgtagccccagctacttgggaggctgaggcaggagaatggcttgaacctgggaggtggagcttgcagtgagccaagatcacgccactgcactccagaatgggagagagagcgagactttctc-------aaaaaaaaaaaaaaaaCTTAGGTTCTTGGATGTTCGGGAAAGGGGGTTA-TTATCTAGGATCCTTGAAGCACCCCCAAGGGCATCTTCTCAAAGTTGGATGTGTGCATTTT
CCTGAGAGGAAAGCTTTCCCACATTATACAGCTTCTGAAAGGGTTGCTTGACCCACAGATGTGAAGCTGAGGCTGAAGGAGACTGATGTGGTTTCTCCTCAGTTTCTCTGTGCAGCACCAGGTGGCAGCAGAGGTCAGCAAGGCAAACCCGAGCCCGGGGATGCGGAGTGGGGGCAGCTACGTCCTCTCTTGAGCTACAGCAGATTCACTCTGTTCTGTTTCA---TTGTTGTTTAGTTTGCGTTGTGTTTCTCCAACTTTGTGCCTCATCAGGAAAAGCTTTGGATCACAATTCCCAGtgctgaagaaaaggccaaactctggaaaaaattttgaatattttgagccaaatgtgaggactacaacctgtgagaacggaaaataaatcctgggaccccagactcactaagccaaagggaaaagccaagctgggaactggcttatgcaaacctgcttcccatctggttcctaaataagatagctattacacaaagataaaaaagctacatccctgcctctacctccatcgcatgtaaaatgtgtattcagtgaacgctgaccaaagacagaagaatgcaacaatttgcctctgatttacccacacccattttttccacttcttcccctttccccaatacccacacttttcccctttacttactgaggtccccagaaaatctttgggaaaagcacggaccacagtttttcctgtggttctctgttcttttctcaggtgtgtccttaaccttgcaaatagatttcttgaaatgattgagactcaccttggttgtgttctttgattAGTgcctgtgacgcagcttcaggaggtcctgagaacgtgtgcacagtttagtcggcagaaacttagggaaatgtaagaccaccatcagcacataggagttctgcattggtttggtctgcattggtttggtctggaaggaggaaaattcaaagtaatggggcttacaggtcatagatagattcaaaga
ttttctgattgtcaattggttgaaagaattattatctacagacctgctatcaatagaaaggagagtctgggttaagataagagactgtggagaccGTGCATAGTTGCTTCCTGATCAGCTCTTTATTTGATTGAGAGTGAGGCAGGGAAGATTAGAGGGAAGCTTACAGTGGAATTCAGGGCTAAGGCTGCTATTCTTTTGCTCCTTGTAACTTCCTACAGTGTTGTCAGCATCCACATACTTCTCTGTGGGGTTggtctcagagccaggttaccttgtcttaggtccagtggcaccctgactggcttggtgtccttgaacaagttacctaacctctccatacctcagtccctcagctgtaaaattaaaaaaaaaaaaaaagaagaagaagagtacctactgtatagcattgatttgaagattgaatgagctggtattatacaacgtttagaagcagtgcctgacacgcaaaaggctctcaacaaatACTATCCTTTACTAATATCCTGTGTGTCTGTATCAGAGCTGGTGGGGTGGAGGGACAGAAACAAGTGGG
+s panTro2.chr1_random 7324768 2478 + 9420409 gtccctctgtctctgccaaccagttaacctgctgcttcctggaggaggacagtcactctgtctctgccaacccagttgaccgcagacatgcaggtctgctcaggtaagaccagcacagtccctgccctgtgagccaaaccaaatggtccagccacagaatcgtgagcaaataagtgatgcttaagtcactaagatttgggCAAAAGCTGAGCATTTATCCCAATCCCAATACTGTTTGTCCTTCTGTTTATCTGTCTGTCCTTCTCTGCTCATTTAAAATGACCCCACTGCATCTAGTACATTTTTATAGGGTCAGGGATCTGCTCTTGGATTTATGTCGTGTTCCCACCTCGAGGCAGCTTTGTAAGCTTCTGAGCACTTCCCAATTCCGGGTGACTTCAGGCGCTGGGAGGCCTGTGCATCAGCTGCTGCTGTCTGTAGCTGAGTTCCTTCACCCCTCTGCTGTCCTCAGCTCCTTCACCCCTGGGCCTCAGGAAATCAATGTCATGCTGACATCACTCTAGATCTAAAACTTGGGTTCTTGgaccaggtgcggtggctcacacctgtaatcccagcactttgggaggccgaggcgggtggatcacaaggtcaggagatcaagaagatcctggctaacacggtgaaaccccgtctctactaaaaatacaaaaaaattagccgggtgtggtggcaggtgcctgtagccccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggtggagcttgcagggagccaagatcacgccactgcactccagactgggagagagagcgagactttctcaaaaaaaaaaaaaaaaaaaaaaaCTTAGGTTCTTGGATGTTCGGGAAAGGGGGTTCTTTATCTAGGATCCTTGAAGCGCCCCCAAGGGCATCTTCTCAAAGTTGGATGTGTGCATTTT
CCTGAGAGGAAAGCTTTCCCACATTATACAGCTTCTGAAAGTGTTACTTGACCCACAGATGTGAAGCTGAGGCTGAAGGAAACTGATGTGGTTTCTCCTCAGTTTCTCTGTGTGGCACCAGGTGGCAGCAGAGGTCAGCAAGGCAAACCCGAGCCCAGGGATGCGGGGTGGGGGCAGGTACGTCCTCTCTTGAGCTACAGCAGATTAACTCTGTTCTGTTTCATTGTTGTTGTTTAGTTTGCGTTTTGTTTCTCCAACTTTGTGCTTCATCCGGGAAAGCTTTGGATCACAATTCCCAGtgctgaagaaaaggccaaactctggaaaaaa-tttgaatattttgagccaaatgtgaggaccacaacctgtgagaatggaaaatacatcctgggaccccagactcactaagccaaagggaaaagccaagctgggaactggcttatgcaaacctgcttcccatctggttcctaaataagatagctattacacaaagacaaaaaagctacatccctgcctctacctccatcgcatgtaaaatgtgtattcagtgaacgctgaccaaagactgaagaatgcaaccatttgcctctgatttacccacacccattttttccacttcttcccctttccccaatacccacacttttcccctttacttactgaggtccccagacaatctttgggaaaatcacggaccacagtttttcctgtggttctctgttcttttctcaggtgtgtccttaaccttgcaaatagatttcttgaaatgattgagactcaccttggttgtgttctttgattAGTgcctgtgacgcagcttcaggaggtcctgagaacgtgtgcacagtttagtcggcagaaacttagggaaacgtaagaccaccatcagcacataggagttctgcattggtttggtctgcattggtttggtctggaaggaggaaaattcaaagtaatggggcttacaggtcatagatagattcaaaga
ttttctgattgtcaattggttgaaagaattattatctacagacctgctatcaatagaaaggagagtctgggttaagataagagactgtggagaccGTGCATAGTTGCTTCCTGATCAGCTCTTTATTTGATTGAGAGTGAGGCAGGGAAGATTAGAGGGAAGCTTACAGTGGAATTCAGGGCTGAGGCTGCTATTCTTTTGCTCCTTGTAACTTCCTACAGTGTTGTCAGCATCCACATAATTCTCTGTGGGGTTggtctcagagccaggttaccttgtcttaggtccagtggcaccctgactggcttggtgtccttgaacaagttacctaacctctccatacatcagtccctcagctgtaaaatttaaaaaaaaaa-----aagaagaagagtacctactgtatagcattgatttgaagattgaatgagctggtattat---acgtttagaagcagtgcctgacacgcaaaagactctgaacaaatACTATCCTTTACTAATATCCTGTGTGTCTGTATCAGAGCTGGTGGGGTGGAGGGACAGAAAGAAgtggg
+
+a score=198101
+s hg18.chr1 229043 2232 + 247249719 AGAAGGTAAAGAGATGGGCAAATGATCTCTAAACTCTCTCTGGCACTAACACAATTCTTTATTATGTGTTTTGTCTGGCTCTTTATATTGATAGCTGTTCCAGAGGCAATCAATAGCTATTAGTCGGTTTTATTCTTATTTTTCTGTCTGATCTTACAAGGGAGCAAACTGTGGCAAAGTATGAACTTACTTCTCAGGAAATTAACCATTATATTGGCAATCACTGTGATTATTTGAACTTCAGCGTCTGGACAAATTTAGTCACATGAAATACAGAAGAGAGATTTCTCATGGTTAAAACGAAGCTCTCTTTATTTGCTTCTGCTAATTAAAAAATCAGAGCTAAAGATACTTAAACACTACAGTTAAAATGCCATGGTTGTCTATTGGCTTAACGAATTCTCTTATGAAATCAACTCTAAAATGTTATCCATCATAAATCATGAAACGCAATTTTTCTTATTCTCTTTAGAGCTTTACAATTCATCTTAAAGACCAGTGTTTACACTCTCTTCTGTAGGTTGTACAATAACTTTTGGTGAGAAAAAATAAAAGTCTGGCTTTCTGACTCATAGGTGTGTTCCCTTTAACAGAAAAAGAAAATATGTCCTCTTTAAAACTGATGATCATTGGTCACCTCAATTTTATTGAAGTTCACTTCTGACCTCTTTAGATGTAGTTCTCTACATAAAACTGCCCAACAGAATTCTCTGTCTGAATGTCTCCTCCACAAACAAAATTTTAAGAACTAAAATTATCATCTTTCCTTCCAAATATGCTCTCCCTATGTCCCCAGGGCTCTCCATGTGTAGAGCTGAGACCATTTGCCACTCAGTTTCCTCACCCAATTAATTACAAGTCCCAACAATTTTCCGGtttttttgtttttgtttttgtttttagacggagtcttgctctgtcaccaggctggtgtgcggtggtgcaat
ctcagctcactgcaacctccgctgcctgtgttcaagcgattctcctgcctcagcttcccaagtagctgggattataggtgtgtgccactacatccagataatttttgtatttttagtagagaggggatttcaccatattggcccagatgatctcaatctcttgacctcatgatctgcccaccttggcctcccaaagtgctgggattacaggcgtgagccgccatccctggccCAGTTTTGCCTTTTTAACATCCCTCAGCTCTTCAAATCCATTTTCTcttctctaacacctccccattccccagctcgtaatgaactcgtaagtaaattactacaatcacctcccaaatggtcttcctggctccatcagccttgtgaccttcaagttcattttccacatggatgtcagagtaactttctaaaatgaaaatctgaccacgttactctcttgcctaaatccgcctatggccgctcttaggatcaagtctaaactcccgaccctggaacatcaggtcttcgtgctctgttcactgcttctctacctcacctgcaaccaACACCACTCCCACATCCATATGCTGCTCACCGTGTATCAACATGAACAGGAGGTGGGTGTTTCAGTCCCCAGGAAGACACTGGGCCTTTTCAATCATCTACTGCTTTGTAATAACCACCCCGCAAACTGACCACATGATTTCATTTTGCAAGGGTTCCTTCCTTgggctgtgttcagcaaaagggtttactgagctggcaggtccaagatggcctcactcacaggactggctgttgatgggagccttgatgctcttgggctcaccccttatcctccagtaggttagagcttcttacagtggtttcaggcagcatctgaagacagtaaaagcagaagctccaaggcttcttacattctagcctggaaaattacatcacattgcttccttcata-tttttttggcaaatcaggttgcaaggcttgcccagattag
ggtaaagaggcaaagaggctccttttcttttcttttcttttcttttttcttttttttttttttttgagtcagaatctcgctctgttgcccaggctggagtgcagtggtgcgatctaggctcactgcaagctctgcctcctgggttcacgccattctcctgcctcaggctcccaagtagctgagactacaggcacctaccaccacacccggctaa----ttttttttttttttttgtattttttagtagagactgtgtctcactgtgttagccaggatggtctccatctcctgacctcgtga
+s panTro2.chr1 223988426 2212 + 229974691 AGAAGGTAAACAGATGGGCAAATGATCTCTAAAGTCTCTCTGGCACTAACACAATTCTTTATTATGTGTTTTGTCTGGCTCTTTATATTGATAGCTGTTCCAGAGGCAATCAATACCTATTAGTCGGTTTTATTCTTATTTTTCTGTCTGACCTTACAGGGGAGCAAACTGAGGCAAAGCATGAACTTACTTCTCAGGAAATTAACCATTATGTTGGCAATCGCTGTGATTATTTGAACGGCAGCATCTGGACAAATTTAGTCACATGAAGTACAGAAGAGAGAGTTCTCATGGTTAAAACGAAGCTCTCTTTATTTGCTTCTGCTAATTAAAAAATCAGAGCTAAAGATACTTAAACACTACAGTTAAAATGCCATGGTTGTCTATTGGCTTAATGAATTCTCTTATGAAATCAACTCTAAAATGTTATCCATCATAAACCATGAAACACAATTTTTCTTATTCTCTTTAGAGCTTTACAATTCATCTTAAAGACCAGTGTTTACACTCTCTTCTGTAGGTTGTACAATAACCTTTGGCGAGAAAAAATAAAAGTCTGGCTTTCTGACTCATAGGTGTGTTCCCTTTAACAGAAAAAGAAAATATGTCCTCTTTAAAACTGATGATCATTGGTCACCTCAATTTTATTGAAGTTCACTTCTGACCTCTTTAGATGTAGTTGTCTACGTAAAACTGCCCAACAGAATTCTCTGTCTGAATGCCTTCTCCACAAACAAAATTTTAAGAACTAAAATCATCATCTTTCCTTCCAAATGTGCTCTCCCTATGTCCCCAGGGCTCTCCATGTGTAGAGCTGAGACCATTTGCCACTCAGTTTCCTCACCCAATTAATTGCAAGTCCCAACAAttttcc------------tttttttttttttttaaatggagtcttgctctgtcaccaggctggtgtgcggtggtgcaat
ctcagctcactgcaacctccgctgcctgggttcaagcgattctcctgcctcagcttcccaagtagctgggattataggtgtgtgccactacatccagataatttttgtatttttagtaaagaggggatttcaccatattggcccagatgatctcaatctcttgacctcatgatctgcccaccttggcctcccaaagtgctgggattacaggcatgagccaccatccctggccCACTTTTGCCTTTTTAACATCCCTCAGCTCTTCAAATCCATTTTCTcttctctaacacctccccattccccagctcgtaatgaactcttaagtagattactacaatcacctcccaaatggtcttcctggctccatcagccttgtgaccttcaagttcattctccacatggatgtcagagtaactttctaaaatgaaaatctgaccacgttactctcttgcctaaatctgcctatggccgctgttaggatcaagtctaaactcccgaccctggaacatcaggtcttcgtgctctgttcactgcttctctacctcacctgcaaccaacaccactcccacatccatattctgctcACCGTGTATCAACATGAACAGGAGGTGGGTGTTTCAGTCCCCAGGAAGACACTGGGCCTTTTCAATCATCTACTGCTGTGTAATAACCACCCCGCAAACTGACCACATGATTTCATTTTGCAAGGGTTCCTTCCTTgggctgtgttcagcaaaagggtttactgagctggcaggtccaagatggcctcattcacaggactggctgttgatgggagccttgatgctcttgggctcaccccttatcctccagtaggttagagcttcttacagtggtttcaggcagcatctgaagacagtaaaaacagaagctccaaggcttcttacattctagcctggaaaatcacatcacattgcttccttcatattttttttggcaaatcaggtttcaaggcttgcccagattag
ggt--------aaagaggctccttttcttttcttttcttttctt-----ttctttttttttgtttgagtcagaatctcgctctgttgcccaggctggagtgcagtggcacgatctaggctcactgcaagctctgcctcctgggttcacgccattctcctgcctcaggctcccaagtagctgagactacaggcacctgccaccacgcccggctaattttttttttttttttttttgtattttttagtagagactgtgtttcactgtgttagccaggatggtctccatctcctgacctcgtga
+
+a score=81076
+s hg18.chr1 231275 904 + 247249719 tccTTGCAAAGGGACATGCAGACCACATTAGTGAGAATATGTGCCTGTATTTTGCAATCTGTAACATGGGCATAAACTAAATGTTTTCCAAAGGGAATAGGGCAAAACAAAAAGGACCTTGACCACTCCTT-GGCCCTGAATAAATCCAGGAAGCCTAAGAGTATGACTATCCTGAGGTAGAAAGAGGGTCACATGCTGGATAAGAGGTACCTGGGCTCTCCACTTACAAGAAGAGAGCATGGTTACATTTATAATCACCATTCCCAACATGCTGTGAGTGCAGGCAGCTACCAGGAGGAGAACAAAGGAAATAACCAGGACACTCATCTCTAAACCTGTTAATTTAATCACACGGAACACTTCTATTTAAAATTCCCGAGAGTTAAGATGTAAGAATGCTTATCAAGGTAAATGCTGTTCACACTGCTTGGAGTGTCAGGCCTAGATCTCTATCCATCAGAaacaacaatatcaataacaacaacagcaacaTGATGATGGGGCAATTTCTTAAAAGCACCATGTATTTTATCGatacatgtccgttgcagaaaatccaggtgaatccaaagaagaaataaatgtcttccacaatcccatagcccagagctaactaACCACTATAAAGAACCCAGCGTGGTTTTAACTCATGGATCAAAAGATGCTCATCAAAGGCTCTGAGCTTTCCTGAGTGCTAACAGGAAACATCCAGCATCACTGGTCTCTCCAAGGCTGCAGGTGTCTTTGCCCATAGTGCCTGTTTTGTGTCAGGGAAAGAATCAACCTGGGAGCCAAGCCCAGGAATCAGGATGACCAAGACATACTGCACAAGGAGGGAACAAACCCATCCAAGGACACTCAAGGACAAATCAAGCAAATGAATTTAAGGGAGACGTGCTCATGG
+s panTro2.chr1_random 7327830 904 + 9420409 TCCTTGCAAAGGGACGTGCAGACCACATTAGTGAGAGTATGTGCCTGTATTTTGCAATCTGTAACATGGGCATAAACTAAATGTTTTCCAAAGGGAATAGGGCAAAACAAAAAGGACCTTGACCACTCCTTTGGTCCTGAATAAATCCAGGAAGCCTAAGAGTATGACTATCCTGAGGTAGAAAGAGGGTCACATGCTGGATAAGAGGTACCTGGGCTCTCCACTTACAAGAAGAGAGCATGGTTACATTTATAATCACCATTCCCAACATGCTGTGAGTGCAGGCAGCTACCAGGAGGAGAACAAAGGAAATAACCAGGACACCCATCTCTAAACCTGTTAATTTAATCACATGGAACACTTCTATTTAAAATTCCAGAGAGTTAAGATGTAAGAATGCTTATCAAGGTAAATGCTGTTCACACTGCTTGGAGTGTCAGGCCTAGATCTCTATCCATCAGAaacaacaatatcaataacaacaacagcaacaTGATGATGGGGCAATTTCTGAAAAGCACCATGTATTTTATCGATACATGTCCGTTGCAGAAAATCCAGGCGAATCCAAAGAAGAAATAAATGCCTTCCACAATCCCATAGCCCAGAGCTAACTAACCACTATAAAGAACCCAGCGTGGTTTTAACTAATGGATCAAAAGATGCTAATCAAAGGCTCTGAGCTTTCCTGAGTGCTAACAGGAAACATCCAGCATCACTGGTCCCTCCAAGGCTGCAGGTGTCTTTGCCCATAGTGCCTGTTTTGTGTCAGGGAAAGAATCCACCTGGGAGCCAAGTCCAGGAATCAGGATGACCAAGACATACTGGACAAGGAGGGAACAAAAGCATCC-AGGACACTTCAGGACAAATCATGCAAATGGATTTAAGGGAGACCTGCTCATGG
+
+a score=188515
+s hg18.chr1 232179 2073 + 247249719 TCTGCTTTGCTGCTCAGCATGGCTGGGAGGCACAGTGGAAGATCATGCATCCTGCCCCTGGGACTCCTCTGCCAGAGCCTGAGAGCTTTCTCCTGCCCACAGGCTAGGGGTAGGGCAGTTGGAATTGATCCATGCCTTCTAGCTAGACTGTGGGTCCCCTCAGTCTTGGGCATGGTGACAGCCCAGCATCAGACAGAGGTCAGTATCAAACTAGAAAATGTAATAAATACTGTCAGATTTGTAGACCCAAGAAAATATAAACTGCCAATCATGGAGGAAAAAAATCTCTCAATGATCTTATCTTTATATGATTCCCTTGCTGCCTGGAGATTGACATTTCCTTGGGGATAATCTGGTCATAGGATTGGTGAAGGTGGAAGGGAGGCAACCTCCAAAGGTGGGGCCCTCTGCTCACCTGGGACAGGGAGGGCCTGAGGTAGGTGTCTGTGTGGGCTGGGGAGGAGGATGGGAGCAGTGCTTCTAGATGTTTCCACTTTCTCCTCATTAGATAATAACGAATGGGTGATTTCCCTAGTCACTGCAGTGTGAGGAAATCTACAAAATTAATTTCACAATACACTTTACAGGATAGGTGGAGAAACACATGAAGCACAACTGCAGTGGGTTATAAAAAACGGCCTTTTGAGTTGAGCAATAAATTCGTTCAAGCAGCCATTCTGAAGGACAAAC-TGGCTCTGTATTTAAGAGGGGCATTCCAGCACTTCTCTAGCCACTGGGTTGACAATGACTCACCAAAGCCTCTGGTAGCCACCACAGGACACCCAGAGCATATGTTTTAAAGCTGAACACCAAACTGCGGACTTCGGGAGTAAGTGAACTGACTGGTTTTTATTTTGTTTTACTGCTTTTAACATTACAGTAACTGTTACAGGTTCCAGCAGGCTAACTGGGTGGAAATGAGTTTGGTTTCACTTAGTCTC
TCTAAAGAGAAAGCAAGTCGGTAGACTAATACCTAATAAAAGCAAAGCTGCCAACAATTGAAATTGCCTAGGCTGCTCTGTGTGTCCCACAtgcatgggtgtgggtgccagtgtgtgtgcgtgtgtgcatgcatgtgcatgtgtgtTGGGATAGAGTGGTAAGAAAATGGGAAATAATAAGAATGTTCAGTCCATAGCCCTTCATTATAAAAAGGTGAGCTGTAATAAATACTAGTGCCACATTTAGCCAAAACTTTACTCCAGCCAAAGGTGATATTTTCATGATAACATCCTGTGATTGCTTTGTTCTTCGTCTTGTATGTTCTTCCTAGATGGGCTCAGAACATACAAGAATTAAGTACACATCTTATTTTCCAGTGATAATGCTACCGGCAAATTCTGTTGTTTGTATAAACATCAGCCAAGTTTATATAACTAAACTAGTGTTTTGTTTTGTCAATTCAGCAAGAAATTAGACCAAATGGTGGCTTAATGCTGCATTGATTTGACTATCAATTTGTTTTCACTTTTCTGCAAAATAATTAATACATTATTAAATTGAGTTATGCTGATGCCACAGTTGTTCTTATCTCAAGTGTCTTAAAATTCATTTAATTTGTTTTTCCTTTGGTTTCATTATTCAGATTTTAACTTCAGTTCTCAAGATTTTATCTGATGGAAGAGATGGAGTCCATTACTAAGGACTCCATTGTGCTCCATCATGCCAGAGTTGTAAAATAGATCTTTTAAAGGAAATTTACTGTGATTTTTTTTCTATTTAAGAGCTTCCTCTCCAGTTGAGCATGTAAGAAAATTATACCAGGAGAATACAGTAAACTCTATGAGGCAAGCTATAAACATGTAGCATTGTGATTAGGGctggttctccttctagagatatggtaggattgcaatttcataccatccttgaagttagagagagccatgtgactcatttagccaatgaactgtgagcagaatgacatgtc
acttccagctgaagctttaaCAATCTGAGAGACATTCATACATTTTCCATGTGCTGTAGCCTTATACCCAAAGCCTGGGTCCCAAGTGACCATGACAGGCAGAGCTCCCTGGtgagccacagagatttagagaatggctgtta
+s panTro2.chr1_random 8588109 2072 + 9420409 TCTGCTTTGCTGCTCAGCATGGCTGGGAGGCACAGTGGAAGATCATGCATCCTGCCCCTGGGACTCCTCTGCCAGAGCCTGAGAGCTTTCTCCTGCCCACAGGCTAGGGGTAGGACAGTTGGAATTGATCCATGCCTTCTAGCTAGACTGTGGGTCCCCTCAGTCTTGGGCATGGTGACAGCCCAGCATCAGACAGAGGTCAGTATCAAACTAGAAAATTTAATAAATGCTGTCAGATTTGTAGACCCAAGAAAATATAAACTGCCAATCACGAAGGAAAAAAATCTCTCAATGATCTCATCTTTATATGATTCCCTTGCTGCCTGGAAATTGACATTTCCTTGGGGATAATCTGGTCATAGGATTGGTGAAGGTGGAAGGGAGGCAACCTCCGAAGGTGGGGCCCTCTGCTCACCTGGGACAGGGAGGGCCTGAGGTAGGTGTCTGTGTGGGCTGGGAAGGAGGATGGGAGCAGTGCTTCTAGATGTTTCCACTTTCTCCTCATTAGATAATAACGAATGGGTGATTTCCCTACTCACTGCAGTGTGAGGAAATCTACAAAATTAATTTCACAATACACTTTACAGGATAGGTGGAGAAACACATGAAGCACAACTGCAGTGGATTATAAAAAATGGCCTTTCGAGTTGAGCAATAAATTCGTTCAAGCAGCCATTCTGAAGGACAATCGTGGCTCTGTATTTAAGAGGGGCATTCCAGCACTTCTCTAGCCACTGGGTTGACAATGACTCACCAAAGCCTCTGGTAGCCACCACAGGACACCCAGAGCATATGTTTTAAAGCTGAACACCAAACTGCGGACTTCGGGAGTAAGTGAACTGACTGGTTTTTATTTTGTTTTACTGCTTTTAACATTACAGTAACTGTTACAGGTTCCAGCAGGCTAACTGGGTGGAAATGAGTTTGGTTTCACTTAGTCTC
TCTAAAGAGAAAGCAAGTCGGTAGACTAATACCTAATAAAAGCAAAGCTGCCAACAATTGAAATTGCCTGGGCTGCTCTGTGTGTCCCACAtgcatgggtgtgggtgccagtgtgtgtgcgtgtgtgcatgcatgtgcatgtgtgtTGGGATAGAGTGGTAAGAAAATGGGAAATAATAAGAATGTTCAGTCCATAGCCCTTCATTATAAAAAGGTGAGCTGTAATAAATACTAGTGCCACATTTAGCCAAAACTTTACTCCAGCCAAAGGTGATATTTTCATGATAACATCCTATGATTGCTTTATTCTTCGTCTTTTATGTTCTTCCTAGATGGGCTCAGAACATACAAGAATTAAGTACACATCTTATTTTCCAGTGATAATGCTACCGGCAAATTCTGTTGTTTGTATAAACATCAGCCATGTTTATATAACTAAACTAGTGTTTTGTTTTGTCAATTCAGCAAGAAATTAGACCAAATGGTGGCTTAATGCTGCATTGATTTGGCTATCCATTTCTTTTCACTTTTCTGCAAAATATTTAATACATTATTAAATTGAATTATGCTGATGCCACAGTTGTTCTTATCTCAATTGTCTTAAAATTCATTTAATTT-TTTTTCCTTTGGTTTCATTATTCAAATTTTAACTTCAGTTCTCAAGATTTTATCTGATGGAAGAGATGGAGTCCATTACTAAGGACTCCATTGTGCTCCATCATGCCAGAGTTGTAAAATAGATCTTTTAAAGGAAATTTACTGTGA-TTTTTTTCTATTTAAGAGCTTCCTCTCCAGTTGAGCATGTAAGAAAATTACACCAGGAGAATACAGTAAACTCTATGAGGCAAGCTATAAACATGCAGCATTGTGATTAGGGctggttctccttctagaaacacggtaggattgcaatttcataccatccttgaagttagagagagctacgtgactcatttagccaatgaactctgagcagaatgacatgtc
acttccagcagaagctttaagaatctgagagacattcatacgttttccatgtgctgtagccttatacccaaagcctgggtcccaagtgaccatgacaggcagagctccctgttgagccacagagatttacagaatgtctgtta
+
+a score=322739
+s hg18.chr1 234252 3582 + 247249719 acacagcataatccagcccatcctgactaatCTGATATTAACATGTATAATAAAGAATTCTATCAATGCTGAGGGAAGATGACTAGTTAAGGTCCTAGGTTGCAAGTCTCAAAACCTCTTCTAAGGATTGTAGACAGGAAATTAAATGACTTCTAGTCCCTAGAGTTCCCAATCTCCT--ACCATCC-CATCCTAATATGACAGAAGTAATTCCTGAGTTGCTTCTGAAACCAGAGCTTCCCTCAGAACCCTTAGCCTGCCAGATGGCTTCTTGGAGAGCCCTCACTCACTTTTCTCCTTCTGCTATTGCTGCTCATTCATTCCAGCTTTTAAAAATTCATCTTTATCCAGGAACCTCGCTTCTAGAAAAGTCATACAGGTGCTTCCAGGAGGCTACATGGGCACCCATATTTTTCTAGCCACTTTCATTAGACCAATGCAGCAGAGAAGAAAAGCCTCAATAATTATTATGACATGGCATGTTAGGATACCAAGTAAATTGCATTTGTAAAATGTGATTTTCTGTTGGTGTTCACTTCTGCTCTACTGACATTTGGTAAGTATTATTGACTGACTGACTAACTAATGTGGTCATTAGTCTTCATAAAGAAAGGCTCTCTACAAAAACGGAAGGATGCCCTTTTTCTGGCATTTAATACGTAAGAAATTGCCTCCAATAGAAACCAGAGTTGCCTGATTACTATCAGCACAGGAGAAATGTATTAATGTGCCTTTCTAGTAACAGGTTTTTAGAAAGTCAAATATAAACAAATCTGTCTATTTGTGTGTGTGCATGTGGTAGTGGGGAGGGAAGAAAAAAGGAGGGGGAGAGAAAGAGAAATAAGAACCAAGTTTATTATACTGTATTCAGGGGGAAAAAATTTTCCCAAGGTTCTAACAGAAGAGCAAAGTGCCACTGTCAATAGCCTCAGTAGTGTTAGA
GTTGCT------------tttatttatttatttatttatttatttatttttcctttttttt-ctttctctttttttcttcttttttttttcttttctttctttttttt----tttttttggacagagtctcacactgtcacctcggctggagtgcattggtgcaatctcgactcactgcaacttctgcctcccaggttcaagtgattctcctgcctcagccgcccaagtagctgggattacaggtgtctgccaccgtgcctagctaatttttttgtatttttagtagagatgaggtttcactatgttggccaggctggtctcaaactcctgacctcatgatccacccacgttggcctcccaaagtgctgggattacaggcgtgagccaccgcccctggccAGGATTGCTTTTACAGCCAGTCTTCAGGTGCCCACTGTAGGAACAATGTCATTTAACCCTCGGGATTATTCTGTGCCAAATATGGATAATGACTAATATCCAACACAGATATTCTCAGCTCAGAAGAGCAATTAGCAAATTCATAAATTAAGTGCTTGCTTCCTCTTTAGTCAAATACAAACGTTTGTTAAAAGATATTATTTTGCTTTACACTTTTTCTCTCAGAAATAAACAGATGCTTGAATTCCCACAGTGCTGCTTGAGCCTCACACCATGTCATCCTGCCAGGCACCCAGATCCAGTTCTAGAGTTTCACATGATCATGAgtgttggttaataagtcaatgcgaactgggaggggagatttttcaggagtgccacagggctctccctttaatcACATACACTCCCTGCTTTCATTGGAAAGTGTATAATGATGTCAGAGTGCCCCAGAATGGAGCTAGTTGGAAGACTGCCGTCATAGGGATGCCTTAGTGAATTAATAAGGTTTTAATTTCTGGCTCTCAACTTTGTAGATGTAAAAGTTGATTTATCAATATGTGAGAAAGGATGAATCTTTCTGAAGGTT
ATGTCATCACACTCACTAAGCACACAGAGAATAATGTCTAGAATCTGAGTGCCATGTTATCAAATTGTACTGAGACTCTTGCAGTCACACAGGCTGACATGTAAGCATCGCCATGCCTAGTACAGACTCTCCCTGCAGATGAAATTATATGGGATGCTAAATTATAATGAGAACAATGTTTGGTGAGCCAAAACTACAACAAGGGAAGCTAATTGGATGAATTTATAAAAATATGCCTCAGCCAAAATAGCTTAATTCACTCTCCCTTATCATAAGGATAATCTTGCCTAAAGGGACAGTAATATTAAAGACACTAGGAATAACCTCTGTACTTTGGACAGTAGACCTGCATAGCCCATTAGGCCTCAATGAAGTCTTATGCAAGACCAGAAGCCAATTTGCCA-TTTAAGGTGATTCTCCATGTTTCTGCTCTAACTGTGCTTCACAATACTCAAAACACTAAATCAGGATGTTTCCTGGAGTTCAGGGAGCTGTCCGTGTTACTGAGCAGTTCTCAGCAACACAAAGATCCTACTGACTCCTCATCAGACTTCTTTCTCACTGGAATTTTACACCTGGGCTGTTAACACCAGGCCAGGTCAAATTCAAAGGAGAGAAAAAAGCTCATTATGAAGGGTAAAATCCAAAACACTGTGCATAAAGATATGTGTGCACAATTTTTATACATAAAGATTTCATAAAACCAAAGCATCAGGAAATGAAAAGAGATACAGAAAGAAAAATGATGGTAAATGAGACATTAATTTACCCTTCTAATCTCTATCACAGCAAAAAGATAATTAAAAAATCTATATGAGGACCACAAAATACACAAAAATTATGTAGCAAAGCCTATAGCCTGAAAAAGTAAACATTGAAATTTGTATGTCCATAAAATGTTTACAAAATTCAGTACATATTACACACCCCACCCTAAAAACATCTAAGCAAAGTAGAGAATGTAGAAATGCTACAGATTATATTCTCT
GATTATGACACAACAAAACTAGAAATTACAGCATGGAAATTTAAAAGCTTTCTCTTAAATAATTCTGTGTCAAAAAGAAATCCAggccgggtacagtggctcatgcctgtaattccagtactttgggaggccaaggtgggcaggtcacttgaggtcagcagttcaagaccagcctcgtcaacatggcgacaccctgtctctactaaaaatacaaaaattagctgggcctggtggctcatgcctgtaatcccagctacttaggaggctgaggcaggagaattccttgaacccagaaggtggaggttgcagtgagctgagattgcaccactgcactccagcctaggtgacacagcaagactctgtc--aaaaaaaaaaaaagaaaTCCAAATAAAATTTCCAGAATATGTGGAAAATAGTGACAATAAAAATATTAcacatgtgtaatcccagcattttgagatgccaaggtggcaggatcacttgagaccaggagttcgcaaccagcctggacaacatagggagactccatctccacacatgccaaaaaaa-tttttaaatagccaggtatagtggtacttcttgtaatcccatctacttgggaggctaaggtgggagaatcacccaacctcaggagttcagggcttcagcaagccatgatcatatcactgcactccagcctcagca
+s panTro2.chr1_random 7330233 3600 + 9420409 ACACAGCATAATCCAGCCCATC-TGACTAATCTGATATCA-CATGTATAATAA-GAATTCTATCAATGCTGAGGGAAGATGATTAGTTAAGGTCGTAGGTTGCAAGTCTCAAAAC-TCTTCTAAAGGATGTAGACAGGAAATTAAATGACTTCTAGTCCCTAGAGTTCCCAATCTCCTTACCCATCCTCATCCTAATATGACAGAAGTAATTCGTGAGTTGCTTCTGAAACCAGAGCTTCCCTCGGAACGCTTAGCCTGCCAGATGGCTTCTTGGAGAGCTCTCACTCACTTTTCTCCTTCTGCTATTGCTGCTCATTCATTCCAGCTTTTAAAAATTCATCTTTATCCATGAACCTCGCTTCTAGAAAAGTCATACAGGTGCTTCCAGGAGGCTACATGGGCACCCATATTTTTCTAGCCACATTCATTAGACCAATGCAGCAGAGAAGAAAAGCCTCAATAATTATTATGACATGGCATGTTAGGATACCAAGTAAATTGCATTTGTAAAATGTGATTTTCTGTTGGTGTTCACTTCTGCTCTACTGACATTTGGTAAGTATTATTGACTGACTGACTAACTAATGTGGTCATTAGTCTTCATAAAGAAAGGCTCTCTACAAAAACGGAGGGATGCCCTTTTTCTGGCATTTAATACGTAAGAAATTGCCTCCGACAGAAACCAGAGTTGCCTGATTACTATCAGCACAGGAGAAATGTATTAATGTGCCTTTCTAGTAACAGGTTTTTAGAAAGTCTAATATAAACAAATCTGTCTATTTGTGTGTGTGCATGTGGTAGTGGGGAGGGAAGAAAAAAGGAGGGGGAGAGAAAGAGAAATAAGAACCAAGTTTATTATACTGTATTCAGGGGGAAAAAATTTTCCCAAGGTTCTAACAGAAGAGCAAAGTGCCACTGTCAATAGCCTCAGTAGTGTTAGG
GTTGCTtttatttatttatttatttatttatttatttatttatttatttttccttttttttcctttctctttttttcttc-tttttttttcttttctttctttttttttttctttttttggacagagtctcacactgtcgcctgggctggagtgcattggtgcaatcttgactcactgcaacctctgcctcccaggttcaagtgattctcctgcctcagcggcccaagtagctgggattacaggtgtctgccaccatgcctagctaatttttttgtatttttagtagagatgaggtttcactatgttgg-caggctggtctcaaactcctgacctcgtgatccacccaccttggcctcccaaagtgctgggattacaggcgtgagccaccgcccctggccAGGATTGCTTTTATAGCCAGTCTTCAGGTGCCCACTGTAGGAACAATGTCATTTAACCCTCGGGATTATTCTGTGCCAAATATGGATAATGACTAATATTCAACACAGATATTCTCAGCTCAGAAGAGCAATTAGCAAGTTCATAAATTAAGTGCTTGCTTCCTTTTTATTCAAATACAAACGTTTGTTAAAAGATATTATTTTGCTTTACACTTTTTCTCTCAGAAATAAACAGATGCTTGAATTCCCACAGTGCTGCTTGAGCCTCACACCATGTCATCCTGCCAGGCACCCAGATCCAGTTCTAGAGTTTCACATGATCATGAAtgttggttaataagtcaacgtgaactgggaggggagatttttcaggagggacacagggctctccctttaatcACATACACTCCCTGCTTTCATTGGAAAGTGTATAATGATGTCAGAGTGCCCCAGAATGGAGCTAGTTGGAAGACTGCCGTCATAGGGATGCCTTAGTGAATTAATAAGGTTTTAATTTCTGGCTCTCAACTTTGTAGATGTAAAAGTTGATTTATCAATATGTGAGAAAGGATGAATCTTTCTGAAGGTT
ATGTCATCACACTCACTAAGCACACAGAGAATAATGTCTAGAATCTGAGTGCCATGTTATCAAATTATACTGAGACTCTTGCAGTCACACGGGCTGACATGTAAGCATCGCCATGCCTAGTACAGACTCTCCCTGTGGATGAAATTATATGGGATGCTAAATTATAATCAGAACAATGTTTGGTGAGCCAAAACTACAACAAGGGAAGCTAATTGGATGAATTTATAAAAATATGCCTCAGCCAAAATAGCTTAATTCAGTCTCCCTTATCATAAGGATAATCTTGCCTAAAGGGACAGTAATATTAAAGACACTAGGAATAACCTCTGTACTTTGGACAGTAGACCTGCATAGCCCATTAGGCCTCAGTGAAGTCTTATGCAAGACCAGAAGCCAATTTGCCATTTTAAGGTGATTCTCCATGTTTCTGCTCTAACTGTGCTTCACAATACTCAAGACACTGAATCAGGATGTTTCCTGGAGTGCAGGGAGCTGTCCGTGTTACTGAGCAGTTCTCAGCAACACAAAGATCCTACTGACTCCTCATCAGACTTCTTTCTCACTGGAATTTTACACCTGGGCTGTTAACACCAGGCCAGGTCAAATTCAAAGGAGAGAAAAAAGCTCATTATGAAGGGTAAAATCCAAAACACTGTGCATAAAGATATGTGTGCACAATTTTTATACATAAAGATTTCATAAAGCCAAAGCATCAGGAAATGAAAAGAGATACAGAAAGAAAAATGATGGTAAATGAGACATTAATTTACCCTTCTAATCTCTATCACAGCAAAAAGATAATTAAAAAATCTATATGAGGACCACAAAATACACAAAAATTATGTAGAAAAGCCTATAGCCTGAAAAAGTATACATTGAAATTTGTGTGTCCATAAAATGTTTACAAAATTCAGTACATATTACACACCCCACCCTAAAAACATCTAAGCAAAGTAGAGAATGTAGAAATGCTACAGATTATATTCTCT
GATTATGACACAACAAAACTAGAAATTACAGCATGGAAATTTAAAAGCTTTCTCTTAAATAATTCTATGTCAAAAAGAAATCCAggccgggtacagtggctcatgcctgtaattccagtactttgggaggccaaggtgggcaggtcacttgaggtcaggagttcaagaccagcctcgtcaacatggcgacaccctgtctctactaaaaatacaaaaattagctgggcctagtggcgcatgcctgtaatcccagctacttaggaggctgaggcaggagaattccttgaacccagaaggtggaggttgcagtgagctgagattgcaccactgcactccagcctacgtgacacagcaagactctgtcaaaaaaaaaaaaaaagaaaTCCAAATAAAATTTCCAGAATATGTGGAAAATAGTGACAATAAAAATATTACACATGtgtaatcccagcattttgagatgccaaggtggcaggatcacttgagaccaggagttcgcaaccagcctggacaacatagggagactccatctccacacacgccaaaaaaattttttaaatagccaggtatagtggtacttcttgtaatcccatctacttgggaggctaaggtgggagaatcacccaacctcaggagttcagggcttcagcaagccatgatcatatcactgcactccagcctCAGCA
+
+a score=160185
+s hg18.chr1 237834 1775 + 247249719 acagagcaagatcctatctcaaaaaaaaaaaaaaaTCACATGTGGGAAATAGCTATAGCACAAtaaaaataaatgtattaagtatgaacaacaaaaaagctagtaaaggttgaacaacaactatccttaggaaagtggaaataatgtattaataaatatgaaagcaggctaggcatggtgactcacatctgtaatcccagcactttgggaggctgaggcaggcagatcacctgaggtcaggagttccagaccagcctggccaacatggtgaaatcttgtctctcctacaaatacaaaaactagccaggcttggttgtgcactcctgtaattcgagctacttgggaggctgaggcaggagaatctcttgaacctgagaggcagaggttgcagtgagccaagatcatgccactgcactccagctggggcaacagagtgacactccatctcaaaataaataaataagaaagcagaaactaataaattagaaaacagaaacatagaactaatttataaatcaaagcactatgccttgaaaagaGGGAGAAAAATTGTGAATTAAGGAAGGGAAGAGATGGTTGGAGAGGAGGTGGGAGAAGGCAGAGATAATTGAAGGAGCAAAAGCATCTGGAGAAGCAAAGCCACTGAAAGATGAACAGGGCTCTGAAAGAGATGCTTGATTGCTATCTTTTCAAATGACTGCAGTTCCCAGTGACATCATTTTTCTCCTCCCTGGAAGTCTGAGGGGCAGTTCACTTATCTCCTCCCCTCCCCTACTCCTCACCCCACACTCAAAACCTGTCTATGCTCCTTTCATTCTCATATGACAGATTTCAGATGGCAGTCTTATTTCCCTGATTTCTTTTTGAGATAGCTTGCATTTCCCTCCTCTATataaagccaccgtttatcaaatgcctacatggaccaagcagtccacaaaggcttc
acagacagttttactaaactcatgccaaaactttcaggttttatacctaccttatagataaagaaattgaagcttatagagtttaagtaatgttcccaaagcctcatggctagtaattcaaacctaatttctgcctactccaaagtctatttttccttatgatactatactgcctctcCAtggataaagacagagatcacatattaataaaatttgcacaaagtcggcaaattgttgaaagggaaggctaagatgattaataaaatcaagagccagatgatctcaacaacctgaaataactggctgacaaccaatttgaataactccctgcgggtgaagttcaaagtactattcgggttttttttttaaagtttggctgggtgcagcggctcacgcctgtaatccaagcacttagggaagccaaggtgggcagatcatgaagtcaggagttgaagaccagcccggtcaacatggtgaaaccccatttctactaaaaataaaaaattagccgggcctgctggtggatgcctgtagtcccagctactcgggaggctaaggcaggagaatcgcttgaacccaggaggtggaggttgcagggagccgagatcgcaccactgcactccagcctgggcgacagagcgagattccgtctcaaaaagtaaaataaaataaaataaaaaataaaagtttgatatattcagaatcagggaggtctgctgggtgcagttcatttgaaaaattcctcagcattttagtGATCTGTATGGTCCCTCtatctgtcagggtcctagcaggaaattgttgcactctcaaaggattaagcagaaa
+s panTro2.chr1 223998133 1767 + 229974691 acagagcaagatcctatctc--aaaaaaaaaaaaaTCACATGTGGGAAATAGCTATAGCACAAtaaaaataaatgtattaagtatgaacaacaaaaaaactagtaaaggttgaacaacaactatccttaggaaagtggaaataatgtattaataaatatgaaagaaggctaggcacggtgactcacatctgtaatcccagcactttgggaggctgaggcaggcagatcacctgaggtcaggagttccagaccagcctggccaacatggtgaaatcttgtctctcctacaaatacaaaaactagccaggcttggttgcacactcctgtaattccagctacttgggaggctgaggcaggagaatctcttgaacctgggaggcagaggttacagtgagccgagatcatgccactgcactccaactggggcaacagagtgacactccatctcaaaataaataaataagaaagcagaaactaataaattagaaaacagaaacatagaactaattcat-----aaagcactatgccttgaaaagaGGGAGAAAAATTGTGAATTAAGGAAGGGAAGAGATGGTTGGACAGGAGGTGGGAGAAGGCAGAGATAATTGAAGGAGCAAAAGCATCTGGAGAAGCAAAGCCACTGAAAGATGAACAGGGCTCTGAAAGAAATGCTTGATTGCTATCTTTTCAAATGACTGCAGTTCCCAGTGACATCATTTTTCTCCTCCCTGGAAGTCTGAGGGGCAGTTCACTTATCTCCTCCCCTCCCCTACTCCTCACCCCACACTCAAAACCTGTCTATGCTCCTTTCATTCTCATATGACAGATTTCAGATGGCATTCTTATTTCCCTGATTTCTTTTTGAGATAGCTTGCATTTCCCTCCTCTATataaagccaccgtttatcaaatgcctacatggaccaagcagtccaaaagggcttc
acagacagttttactaaactcatgccaaaactttcaggttttatacctaccttataggtaaagaaattgaagcttatagagtttaagtaatgtttccaaagcctcgtggctagtaattcaaacctaatttctgcctactccaaagtctatttttcctcatgatactatactgcctctcCAtggataaagacagagatcacatattaataaaatttgcacaaagtcagcaaattgttgaaagggaaggctaagatgattaataagatcaagagccagatgatctcaacaacctgaaataactggctgacaaccaatttgaataattccctgcgggtgaagttcaaagtactatttggg-gtttttcttaaagtttggctgggtgcagcggctcacgcctgtaatccaagcacttagggaagccaacgtaggcggatcatgaagtcaagagttgaagaccagcctggtcaacatggtgaaaccccgtctctactaaaaataaaaaattagccgggcgtgctggtggatgcctgtagtcccagctactcgggaggctaaggcaggagaatcgcttgaacccaggaggtggaggttgcagggagccaagatcgcaccactgcactccagcctgggcgacagagcgagattccgtctcaaaaaattaaataaaataaaataaaaaataaaagtttgatatattcagaatcagggaggtctgttgggtgcagttcatttgaaaaattcctcagcattttagtGATCTGTATGGTCCCTCtatctgtcacggtcctagcaggaaattgttgcactctcaaaggattaagcagaaa
+
+a score=600826
+s hg18.chr1 239609 6564 + 247249719 gagtttaatgaaggatctctttccagggttaagggaactgctagggtttggatatttgaccactccaaactcatgttgaaatgtgatccccattgttggaggtggggcctaatgggaggtgttttggtcctgagtgtggacctctcacgaatgtcttggtgccatccaagtgagttcttgctcgctcttttttttctttttgcgatgtagtttcactcttgctgcccaggttggaatgtagtggtgcgatcttggctcactgcaacatccacctcacgggttcaacccattctcctgtgtcagcctccagagtagctaggattacaggtgcccaccactatgcccagctaatttttggtatttttagtagagacggggtttcaccatgttggccaggctggtctcaaactcctgacctcaggtgatccacctgcctcggcctcccaaagtgctgggattacaggcgtgagccaccgtgcctacctagttctagctctcttaattcccacaagagctggttgttaacaagagcctggcacaaacccctctctctcgccacgtgatctctgcacatgccagcttcccttccccttctgtcatgagtggaaacagcctaacgccctcaccagaagcaaatggtggcaccatgcttcttgcacaccttcagaactgtgagccaaataaacctctcttctttaaaattattcagcctctggtattcctttataacaacacacacacacacacacacacatacacacacac------------------gcaaaagcagactaaaacaggaactaattagaaatggtgatgcaccgagggattggcaCCGAGGCTCCCCAACAGGAACTGAGGTCATGGATAGAAGGACACATTCATGTTATTTTTTTCTAATGGTTAAGTAATTATTTGctcttactctcaaaattt
ctgccaaggcctcccatggaccaaactcaactagaatctaggaagcagagaacctgagtgttgcattcagcagaagtcagcttcctagggaatcttgcaggaagggtgaaggtagagaatctggtggggaagcaagcaaatgcccatcacaTGCACTTTCCTccaacagagcgactcagatgctataaaacttgctaacacagtctcagggtctgatcacagtaacatacaatccaggttttaatcatcagaaatcacagtcctattgtcttctgcacagacccaaacacacttggaggtcatgttcaatatgaatacctcacagagaaggaaatttacacgcgagaagtacatctgcagaaagccagctggcatgtcaaccattcaaaaactcagggtgttctggataaagaagactcaggaagacaagtatgaagcataatctgtgacattccatgcggcagacattagacatatacaagagagttgttggaaagcggaatttatcttcatataaacaacactgagctaaatctcaatatttcagatctctagaactatccatcagtgaaatggattgcaaatacaaagagtaataccatgtcacttaagaatacaatcatggacgaggctgccacctgctgttgggggccactgcagaagaaattccagaacactggactggagagcacctcactttccttacagctctaagtttctgACTCAGTGACCTGATTCACTACCATATACACAAAGACCCACTTACACAAATGACTGTTCTTCACACTAGGCCCATGGAGACAGGGATAAAATTCTGAATTTGCTCAGATACCTTCTCCGCTACTGACATCTAGGCATTACACAATTCATCTCTTCATATTTAACCTTTGAAGTTTGCTACTTCTCAGAGAGACTAATGAGTAGTGAGCAAATATCCTGAAGTTGAGAATGCTTCTACCTCCTCTCAAAACAACGGAATATTCATCAAA
ACACAACAGTTCTGCACTTAACTTTAGGCCTTTTCTAACACCTTGTTTCTTGGCAGTAACTGTGGCCAGAATAGCTCTTTCCACAGATAAAGGACCTTTTGAAAGGATAGGGTCTCTAGATAGAAAAGCAAATGCCTCATTCCAGAAGGTCTTCAAGAAGAAAATGTTGTGGTGATAACAAACATAACTGATTATAATCTATTCTGTGAAAAAAGCTTATGAAACAGTAGATGTGTGTATCTAGTACATAAGAGCTGAATGTCAATATATATATA--GATATATACacacactcaaataaataatagttatctctaactagagaaattctagttgccttatattttcttctttttccttactatattttctacaataaacatgtgtttttaacaagaaaaGTCTTTTCTGGTGTGCTTTTTAATTTTCTTTGTTTAAGTGAGAGTGAGGCTACATAACTACATGGCTAGGTAGACTTTTAGAAAACTTGACTGCTCTAGAAAATTGACATATCCTGATTTCTTCCATAGCTTGGATCTTGACCTAGAGGGAAATATAAAAGTGTTGACTTGAACCTGAGGGGTGCCATTTTCACTGCTGAAGTAGTTTCATGGATCATGAATTGGAGAAATGACTTCAGCAACATGGGTGTTAAAAACAGAAAGCACAAGTGACCCACAACAGATGATGGAGAACAAAGAGCAAGCTGGGAAA-GCAGTGGCCTTTAATACAGAAAAGAAGAAGTATAGCCACAATAAATATTAGGCAGACAGCAGTTCAGCAGTTTATACTATTAAGCTGTTGTTTAGGGGAATAGTAAACTGACATGACCCTTGAGGTAGGTATATATAGGTAAATTCTATGTGTCCCTTGAAATAGGTGTATGACACAACTTCTGGCATCTACATGGATTTGGTCACTCTAAAGTAGCCATGAGGCTTAAGATAGTTCAGCTGTTTGGGGATAAGTTAAATCATTTGCCATTGTCT
TTCTGCAATTTGCATATCCTACAGTTATCATTGCCATTACTGAATGGCACAGAGAAAAATTCTGGTCTAAAGTGGTTCTCAAACCTGGTTGCTGGAGGGccaccctcagtgatgatgatttaatctgtagaagagtagaacattgatagtttttatatatctccaggtaattttaatatataactggggtgagaatcattgACGTAATTGTAAGAGGATAATATTCAGGAAATATGGAGATAAATAATTTTCTTCTCGACATTAAAAAAATCTAATAAAAAGTTTTATCTTTTCCCCTAACTCAGGGTCATCAGCCTTCAAGCTTCAGTCTCTGTGTGTTCACAGGTGCTGTAAACACACGCATCACTACTAATATCCCACTTCAGTGCTATTGCTGCTCCCAAAACTCCAGGTATTTTTAACCTTATAAACCTCCAGAATAATGAGACCACTGGGTTCAGTAAATTGCTTTGTTTTGAAGCAGTATTAGACAAAGTGGGAGACTAGAAGATAAATCTGTCAATGACATGTCCTTTAAGACTACTTAGATTTTGTTGAATTTGTGGATCATTCCTTACTTGAGCAAATGGTAAATTAACTCTCTCTTTTCTCTCTCTCTCTAGCTGGCACACTTTTTCCAGTAGCCATTCTACTTGGTATGCTTACTTATCAGCTGTCCTCCAGGGGCCTCACATTAGATGTTTCTCT-GACTAACCAAACATGACACACAGCTGAAGTCAGAAAAACCAGATTGATAATTTCACTCAAACTATTTTCCTTCATTCTAACAATTTACTGGAGTACACAATTGTGACTATTTTTAGCCATAGGAACTCATAGAAAGACCAACTTCATTAGACCTACAAAATCGAATTGTGTAACAGTATATGCAGTATGTGTAGGAATAAAAAGCATTTCTCAAATATGCAGTACTGGATTTTGCAAAAGCACCTTACACTTAGCTATAAAGGAGTGGAAAACACAAAGA
TGAGTAACTGCACCTTTCAAAAGACTAGAGCTATACCAATAATACAAAGGTGTAAACAAATAATGATGAGATGACAAAGGCTGAGTGTTTTCTATTTGGAAGCTATGTTGTTGAGTTATTTATGTATATAATTTCATGCAATCTTCATGTTATGGGGATGTTctaatccactgtgactctgtccttaaataaaagggagatttggacatagagagaggcacacggggaggatgccatatgagaattgacactgtgctgtcacaagccaaggaactactggaaggagagaaagaggactggaacagttccttccttagcaccttttcaggcagcctagccctgccagcttcttgatctggacttctcacctctagaattgtgaggcaataaatctctgttgcttaagttacccagtttgtggtaccttattacaggagccctaggaaaataattcaTTATATAATctgctaaggtagatctgatcattgtctccaatttccatatgaagaaactatgcctcaggcattgtgtcagttgtccaaaatcatacattcctgactcacttcaatgaattcctcattcagcaaaatttttaaggtaccttaaaaaaattatgttaactcttaaggccttgctttaaagcttcaatgggcttttcctttgcaaagaataaaatcctaatacttaagcatagctctctttcctggctatgtttctgacatcctcttgtaccatgctcctccttaatcattctgaggttacatcttaagtcctttccccttgccattcccacttcttggaatactttcccatcaactcttcaaagaactgccttctttaagtatttggtctcagttcaaatgtcacttccctgtaaaagcttcctggccatcaagccttctttacacactctattttattttttcatggttcctataacaacctaatatattctcaattgattaactgttttgctgactactgccttc
cataagaatggaaagaaaacgtggccaggtgcagtggctcacacctgtaatcccaccacttcaggaggctgaggcaacatggcaaaaccttctcttcaaaaaattttttaaaagttagctggatgttgtggaggcaagaggatcacttgaggatcacttgagtccatgaggtcaaggctgcagtgagtcatgtttgcaccactgcactctagcctaggtgacagagctagtccctatcaaaaaaaaaaaaaaaaaaaaaagaatggagagaatgctacatgagagaaaggatcttatctatcacgttcacctcccaagaggtgaacatatcccccaaagcctgatagagagaagatgctcattaatatttaatgcatgaCCATGTGCAGACTTGGGAGGAAAAATATGCCTCAGCCTATCAATATTGGATCCTTAATAAACAAGGATGTTTCTGCATCATTTCCCCACAACACCGAACAAGTGTGGCTCACTGTGGATGTTTAAGCAAATGCATTGTTTTTCCAGTTATATATCTGGTAGAGATTAGGCCATTGATAGGAATGGGAAGACGATCTCCTTTTATTTTGATGACCCAGCATGGCTGAACACTCAGTGACTACCACTGCACTTTGTTGTACTTTCAGCATTAGAGATGCCAGCCCTGTAGGATATAAAACAGGAACATCTAGTCCTCAATTATATTCAGAATTACTCAAGTCTTAGAAGCACCACTTGTCTTTTTTCAAGGGAGAGAAATGCTCAAGTGATGGGCTGAAGTGAAGGGAGGGAGTCACTCACTTGAATGGTTCCCTTAGGCTGTGTGGATGCAAACAGCATTAGACAATGACACTGACAGTGGGAAATGCACTGGAGACGATGATTGGCAAAGCCCTCCTTTTCTCCCCATCCACTATAGATACTGACAGCAAAGGGTTTGTCACAATGACAACTATACACTCCCAATATCACAGAAGAAGGAGGAATAAAAG
GGTATATTATGAGTGACTGaaatttagaataaattaataaatattatGTCCCTCATCCATAGAAACCACAAAGGTCTAGTAAGGCTAAGGATATAACAAGAAAATAATATGAATATTTGCTTCCCCTTCCTAGTGTAATAGAGTAAGTTACAAATGGCTTCAGGAAGGGGAGAGAGGAAGAAGAGTGGATGAGATACGTAAGAGTGCTTGAGGGATAATTTTATGAAAGCTTTGGGAAGTTTTAAGAAAAAGAAAAGCTATTTTTCAAGGTACAtgtgtgtatgcgtgtgtgtgtgtatgtgtgtgtgtgtgtgtgtgAAAGACAGAAGAAAGAGGGAGACCTAAGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACACACACTTAGAAAAACACACATAAGGAGGAGGGAGGAGGTTAAGACATTTTACTATGTGCTGTGAATGGAAACTACAAACCATTTTTGATatatgcaatatatatacatatatacacacatatacatatGTATTTAAATATTTAAATTACAttttctctttttttagagatatggtttcactatgtcactctgcccaggctgcagtacagtggttgttcacagtcatgatcatagcacattatagccttgaactcctgggctcaagcaaccctcctgtattagtctccccagtagttgggattactagcat
+s panTro2.chr1_random 7333834 6571 + 9420409 GAGTTTAATGAAGGGTCTCTTTCCAGGGTTAAGGGAACtgctagggtttggatatttgaccactccaaactcatgttgaaatgtgatccccattgttggaggtggggcctaatgggaggtgttttggtcctgagtgtggacctctcacgaatgtcttggtgccatccaagtgagttcttgctcgctcttttttttctttttgagatgtagtttcactcttgctgcccaggttggaatgtagtggtgcgatcttggctcactgcaacatccacctcatgggttcaacccattctcctgtgtcagcctccagagtagctaggattacaggtgcccaccactatgcccagctaatttttggtatttttagtagagatggggtttcaccatgttggccaggctggtctcaaactcctgacctcaggtgatccacctgcctcggcctcccaaagtgctgggattacaggcgtgagccaccgtgcctacctagttctagctctcttaattcccacaagagctggttgttaacaagagcctggcacaaacccctctctctcgccacgtgatctctgcacatgccagcttcccttccccttctgccatgagtggaaacagcctaaagccctcaccagaagcaaatggtggcaccatgcttcttgcacaccttcagaactgtgaaccaaataaacctctcttctttaaaattattcagcctctggtattcctttataacaacacacacacacacacacacacacacacacacacacacacacacacacatatgcaaaagcagactaaaacaGGAAATAATTAGAAATGGTGATGCAACGAGGGATTGGCACCGAGGCTCCCCAACAGGAACTGAGGTCATGGATAGAAGGACACATTCATGTTATTTTTTTCTAATGGTTAAGTAATTATTTGctcttactctcaaaattt
ctgccaaggcctcccatggaccaaactcaactagaatctaggaagcagagaacctgagtgttgcattcagcagaagtcagcttcctagggaatcttgcaggaagggtgaaggtagagaatctggtggggaagcaagcaaatgcccatcacaTGCACTTTCCTccaacagagcgactcagatgctataaaacttgctaacgcagtctcagggtctgatcacagtaacatacaatccaggttttaatcatcagaaatcacagtcctattgtcttctgcacagacccaaacacacttggaggtcatgttcaatatgaatacctcacagggaaggaaatttacacacgagaagtacatctgcagaaAGCCAGCTGGCATGTCAACCATTCAAAAATTCAGGGTGTTCGGGATAAAGAAGACTCAGGAAGACAAGTATGAAGCATAATCTGTGACATTCCATGCGGCAGACGTTAGACACATACAAGAGAGTTGTTGGAAAGCGGAATTTATCTTCATATAAACAACACTGAGCTAAATCTCAATACTTCAGATCTCTAGAACTATCCATCAGTGAAATGGAGGGCAAATAGAAAGAGTAATACCATGTAACTTAAGAATACAATCATGGACAAGGCTGCCACCTGCTGTTGGGGGCCACTGCAGAAGAAATTCCAGAACACTGGACTGGAGAGCACCTCACTTTCCTTACAGCTCTAAGTTTGTGACTCAGTGACCTGATTCAGTACCATATACACAAAGACCCACTTACACAAATGACTGTTCTTCACACTAGGCCCATGGAGACAGGGATAAAATTCTGAATTTGCTCAGATACCTTCTCCGCTACTGACATCTAGGCATTACACAATTCATCTCTTCATATTTAACCTTTGAAGTTTGCTACTTCTCAGAGAGACTAATGAGTAGTGAGCAAATATCCTGAAGCTGAGAATGCTTCTACCTCCTCTCAAAACAACGGAATATTCATCAAA
ACACAGCAGTTCTGCACTTAACTTTAGGCCTTTTCTTACACCTTGTTACTTGGCAGTAACTGTGGCCAGAATAGCTCTTTCCACAGATAAATGACCTTTTGAAAGGATAGGGTCTCTAGATAGAACAGCAAATGCCTCATTCCAGAAGGTCTTCAAGAAGAAAATGTTGTGGTGATAACAAACATAACTGATTATAATCTATTCTGTGAAAAAAGCTTATGAAACAGTAGATGTGTGTATCTAGTACATAAGAGCTGAATGTCAATATATATATATAGATATATACACACACTCAAATAAATAATAGTTATCTCTAACTAGAGAAATTCTAGTTGCCTTATATTTTCTTCTTTTTCCTTACTATATTTTCTACAATAAACATGTGTTTTTAACAAGAAAAGTCTTTTCTGGTGTGCTTTTTAATTTTCTTTGTTTAAGTGAGAGTGAGGCTACATAACTACATGGCTAGGTAGACTTTTAGAAAACTTGGCTGCTCTAGAAAATTGACATATCCTGATTTCTTCCATAGCTTGGATCTTGACCTAGAGGGAAATATAAAAATGTTGACTTGAACCTGAGGGGTGCCATTTTCACTGCTGAAGTAGTTACATGGATCATGAATTGGAGAAATGACTTCAGCAACACGGGTGTTAAAAACAGAAAGCACAAGTGACCCACAACAGATGATGGAGAACAAAGAGCAAGCTGGGAAAAGCAGTGGCCGTTAATACAGAAAAGAAGAAGTATAGCCACAATAAATATTAGGCAGACAGCAGTTCAGCAGTTTATACTATTAAGCTGTTGTTTAGGGGAATGGTAAACTGACATGACCCTTGAGGTAGGTATATATAGGTAAATTCTATGTGTCCCTTGAAATAGGTGTATGACACAACTTCTGGCGTCTACATGGATTTGGTCACTCTAAAGTAGCCATGAGGCTTAAGATAGTTCAGCTGTTTGGGGATAAGTTAAACCATTTGTCGTTGTCT
TTCTGCAATTTGCATATCCTACAGTTATCATTGCCATTACTGAATGGCACAGAGAAAAATTCTGGTCTAAAGTGGTTCTCAAACCTGGTTGCTGGAAGGccaccctcagtgatgatgatttaatctgtagaagagtagaacattgatagtttttatatatctccaggtaattttaatatataactggggtgagaatcattgACGTAATTGTAAGAGGATAATATTCAAGAAATGTGGAGATAAATAATTTTCTTCTCGACATTAAAAAAATCTAATAAAAAGTTTTATCTTTTCCCCTAACTCAGGGTCATCAGCCTTCAAGCTTCAGTCTCTGTGTGTTCACAGGTGCTGTAAACACACACATCATTACTAATATCCCACTTCAGTGCTATTGCTGCTCCCAAAACTCCAGGTATTTTTAACCTTATAAACCTCCAGAATAATGAGACCACTGGGTTCAGTAAATTGCTTTGTTTTGAAGCAGTATTAGACAAAGTGGGAGACTAGAAGATAAATCTGTCAATGACATGTCCTTTAAGACTACTTAGATTTTGTTGAATTTGTGGATCATTCCTTACTTGAGCAAATGGTAAATTAACTCTCTCTTTTCTCTCTCTCTCTAGCTGGCACACTTTTTCCAGTAGCCATTCTACTTGGTATGCTTACTTATCAGCTGTCCTCCACGGGCCTCACATTAGATGTTTCTCTTGACTAACCAAACATGACACACAGCTGAAGTCAGAAAAACCAGATTGATAATTTCACTCAAACTATTTTCCTTCATTCTAACAATTTACTGGAGTACACAATTGTGACTATTTTTAGCCATAGGAACTCATAGAAAGACCAACTTCATTAGACCTACAAAATTGAATTGTGTAACAGTATATGCAGTATGTGTAGGAATAAAAAGCATTTCTCAAATATGCAGTACTGGATTTTGCAAAAGCACCTTACACTTAGCTATAAAGGAGTGGAAAACACAAAGA
TGAGTAACTGCACCTTTCAAAAGACTAGAGCTATACCAATAATACAAAGGTGTAAACAAATAATGATGAGATGACAAAGGCTGAGTGTTTTCTATTTGGAAGTTACGTTGTTGAATTATTTATGTATATAATTTCGTGCAATCTTCATGTTATGGgggtgttctaatccactgtgactctgtccttaaataaaagggagatttggacatagagagaggcacacggggaggatgccatatgagaattgacactgtgctgtcacaagtcaaggaactactggaaggagagaaagaggactggaacagttccttccttagcaccttttcaggcagcctagccctgccagcttcttgatctggacttctcacctctagaattgtgaggcaataaatctctgttgcttaagttacccagtttgtggtactctattacaggagccctaggaaaataattcaTTATataatctgctaaggtagatatgatcattgtctccaatttccatatgaagaaactatgcctcaggcattgtgtcggttgtccaaaatcatacaTTCCTGACTCACTTCAATGAATTCTTCATTCAGCAAAATTTTTAAGGTACCTTTAAAAA-TTATGTTAACTCTTAGGTCCTTGCTTTAAAGCTTCAATGGGCTTTTCCTTTGCAAAGAATAAAATCCTAATACTTAAGCATAGCTCTCTTTCCTGGCTATGTTTCTGACATCCTCTTGTACCATGCTCCTCCTTAATCATTCTGAGGTTACATcttaagtcctttccccttgccattcccacttcttgggatactttcccatcaactcttcaaagaactggcttctttaagtatttggtctcagttcaaatgtcacttccctgtaaaagcttcctggccatcaagccttctttacacactctattttattttttcatggttcctataacaacctaatatattctcaattgattaactgttttgctgactactgccttc
cataagaatggaaagaaaacatggccagatgcagtggctcacacctgtaatcccaccacttcaggaggctgaggcaacatggcaaaaccttctcttcaaaaaattttttaaaagttagctggatgttgtggaggcaagaggatcacttgaggatcacttgagtccatgaggtcaaggctgcagtgagtcatgtttgcaccactgcactctagcctaggtgacagagctagtccctatcaaaaaaaaaaaaaaaaa-----gaatggagagaatgctacatgagagaaaggatcttatttatcatgttcacctcccaagaggtgaacatatcccccaaagcctgatagagagaagatgctcattaatatttaatgcatgaCCATGTGCAGACTTGGGAGGAAAAATATGCCTCAGCCTATCAAAATTGGATCCTTAATAAACAAGGATGCTTCTGTATCATTTCCCCACAACACCGAACAAGTGTGGCTCACTGTGGATGTTTAAGCAAATGCATTGTTTTTCCAGTTATATATCTGGTAGAGATGAGGCCATTGATAGGAATGGGAAGACGATCTCCTTTTATTTTGATGACCCAGCATGGCTGAACACTCAGTGACTACCACTGCACTTTGTTGTACTTTCAGCATTAGAGATGCCAGCCCTGTAGGATATAAAACAGGAACATCTAGTCCTCAATTATATTCAGAATTACTCAAGTCTTAGAAGCACAACCTGTCTTTTTTCAAGGGAGAGAAATGCTCAAGTGATGGGCTGAAGTGAAGGGAGGGAGTCACTCACTTAAACGGTTCCCTTAGGCTGTGTGGATGCCAACAGCATTAGACAATGACGCTGACAGTGGGAAATGCACTGGAGATGATGATTGGCAAAGCCCTCCTTTTCTCCCCATCCACTATAGATACTGACAGCAAAGGGTTTGTCACAATGACAACTATACACTCCCAATATCACAGAAGAAGGAGGAATAAAAG
GGTATATTATGAGTGACTGAAGTTTAGAATAAATTAATAAATATCATGTCCCTCATCCATAGAAACCACAAAGGTCTAGTAATGCTAAGGATATAACAAGAAAATAATATGAATATTTGCTTCCCCTTCCTAGTGTAATAGAGTAAGTTACAAATGGCTTCAGGAAGGGGAGAGAGGAAGAAGAGTGGATGAGATACGTAAGAGTGCCTGAGGGCTAATTTTATGAAAGCTTTGGGAAGTTTTAAGAAAAAGAAAAGCTATTTTTCAAGGTACAtgtgtgtatgcgtgcg--------tgtgtgtgtgtgtgtgtgtgAAAGACAGAAGAAAGAGGGAGACCTAAGAAGACTATGAGACACTAAGAGAAAAATTAAGGTAAAAAAGACACACACTTAGAAAAACACACATAGGGAGGAGGGAGGAGGTTAAGACATTTTACTATGTGCTGTGAATGGAAACTACAAACCATTTTTGATatatgcaatatatatacatatatacacacatatacatatGTATTTAAAGATTTAAATTACAttttctatttttttagagatatggtttcactatgtcactctgcccaggctgcagtacagtggttgttcacagtcatgatcatagcacattataaccttgaactcctgggctcaaggaatcctcctgtattagtctccccagtagct-ggattacTAGCAT
+
+a score=518950
+s hg18.chr1 246173 3827 + 247249719 atgccaccatgtccACCTTTATGCTTTTTAAAGTGAAAAACCATACTAAGAATGAGGCAGCTCAACTTAATAATAAAAACATTTCAAATGtaaagaaatttacaaaagaaaaacaatcaaccccattaaaattgggcaaagggaatgaacggacacttttcaaaagaatacatgcatgcagccaacaaacatacaaaaaaaaagttcaacatcactgatcattagagaaatgcaaatcaaaaccataatgagataccatttcacaccagtcagaatagctatcattaaaaagtcaaaaactaacagatgctagtgaggctatggagaaaagggaatgcttatacactgttgttgggtgtgcaaatcagttcaatcattgtgcaaggaa-agtgattcctcaaagagctaaaagcagagctaccattcgacccagtaatcccactactgggtatatacccagatgaatataaaccattctaccataaagacacatgcatacaaatgttcattgcagcactgttcacaatagcaaaagtatgggatcaacctaaatgcccatcaatgacagattggataaagaaaatgtggtacatatacaccatggaatactatgccgccattaaaaaatgatatcatgtcttttgctggaatatggatggaccttctattatccttagcaaactaatgcaggaacagaaaaccaaatacagcatactctcagttataagtgggagctaaatgatgagaactcatgaacacaaagaataaaacagacactggggtctacttgagggtggagggtgagaaacggaagagaaacagaaaagataactattgggtactaggtttaatacctgggtgatgaaatgatctgtacaataaccccctgtgacaccagtctacctatgtaacaaatgcccctaaacttaaaataaaagtta
aaaaaaaaAGAAAATTAAAATCTCCTTATCATCTACCTGGTAATATGAAAAACACATATCTTTCATtcattcctttcaactgatgaggaaactgaggcattgggagttagtaaAAGTCCACATTGAGATATGAGACCCACCACTggctggacacagtggctcacacctgtaatcccagcactttgggaggccgatgctggtggatcacctaaggtcaggagttcgggaccaggctggccaacatggtgaaacccccatctctactaaaaatacaaaaattagctgggtgtggtggctggcacctgtaataccagctactagggaggctgaggcaggagaatcgcttgaacccaggaggtggagtttacagtgagccaaaatcatgccattgcactccagcctgggcaacaagagcaagactctgtcggggaaaaaaaaaaacaaaaaaaaCCACCACCATCATTTTGCAAGTGTTACCACTATTGTGTGTTAATATTGTAGAAGTATTCCTAATTATGATTTCTTTGTATTCCTAATTGTAATAGCTTTGTATTTGAAAAATTATTGATTCATACTCTATATGTTATTATTTTGTATGCGATGACAACAGAATATATTATCATGCTCCTTTTGTGAATCTCATTCATAATATAAAGTATAAATTTGTGATTTTGCTTTAATTTGAAATATTAATTTCAAATATGTTATCACAATTTGATACAAACTATTGACAGTAAATCTGTGGATTAAGTAATGTCTTAGTAGGTATTGGGAAAATTTGAAACTAGTAACATGGAGGACTATTGTCATTGTTTATTTCAAAGCCAGTTAAAATTCTGCAAAGCAGTGTACATAAAAATAATTTCAAGAAATTTATAAAATACCGAGATTATGGTGTATAAACAACTTTAGATTCTTTGTTTAAGAAATACTGCCAGTTTGTAATATAtgcttcattcaaagtagctaagggctgtacctggctaata
gtaggcacctaatatttgttgaaaaggaatACTGAGTAGCTGGGACCTCCTGAGTAGCTGGGACCACACACATTTAACCTGTATTTATAAAATTACTGTTTAGAGAATAACATTTGATGGAatcatgcttttactttctgcttacgactcaattgtttgtactgacattaacatcccaaatccttagcatggcctacaaggccctgagcaatgtggcacctgctgaagcctgctgcctcatttaataactctttgtctctttcccagatccagccactctaacattttttagctcctggaccaagacaagctcttcccagaacctgagctttgtacctgttctttattcctggagtatttttcccctgacaaattacttatcatctatcataattcaggttaaatggcactaactcagggaaggcttccctaactgtctcccttctccaaccaaattaggaacaattatatggccacatagtatcgaatcaagtttataattttaaaataattgggagattttgttgtttaacacttgttttcactataagactgtaattacatgcaagtaagaaccatgcctgtttgttcactcctgccacagtcagaatagtgcctggaatatgcagtaagggctgaacaagcactaaataaatgaaCAAGTGAATAAATGGATATTGTCTCATTTTCAGAACAGAGTACTAAATGGATCATGAACACTATCTGGTATGTCACGTAGGTAATTTACAAGGGCTACAATTTCAGCTCAGATTTACCTTTTCCTGGATACAGGTCTTGATAGGTCTCTTGATGTCATTTCACTTCAGATTCTTCTTTAGAAAACTTGGACAATAGCATTTGCTGTCTTGTCCAAATTGTTACTAAGAATCAAGAGAGATATCTGACATGAAATGACATTGGAAAACATTAAACACGATTGAAATAATGCTAGCCAATATGGTTACTATTAGAAACCAATTACATTTTCA
ACTTAAAAATAGTAATACTTATTGCAGACTCAAATGTGCTTATTCTAAAACAAGTAAATGTTTGCCTATGGTCTGAGATTCTAATCCACGGAGTTCATTCTAATCCACATTCAACACTATCATGTACCAGTGGGCCTCATAACCCACCTAGCCCTGTGATTTTTCAGGTTCACTTTTCTAAACTTGTGAATTAAATATTTATTTTCTTAGTTCAGAAGAGGAAAAAAACTCTTGTAATTGTTGCCCATTTCAGGAGAAATCTTGCATATGAAAACAAGAGATAAATATACACAACTGAGGGCTGTGGTTTAAACAAAATCTTGAGAATGTTTTTTGACCTTATACATTTGTGCTTTAGTATAACAAAATGATATAGACAAAGGTAACTTTTAATAGAACCAGTCACTAAATTAAAAAAATGACAAATTCTTCTGCTTAGCTAAGCAACAGAGAAGGTAAAATACTAATTCAATTCATCAATTTAAGCAATACTCATTAAGAGCCAAGTATGTGCTTACTGAATAAGCTGCTAAGGTTTGGTGGTTACAGAGTGTGCGGTGAAATGATGTCTACATCACAGTCCAACATTCACAGAGTTTAAAAGCCTACCAAGAATCAAGACAGACACAAATACCTAACATAGACGTTTGTATATGATAAGAGAGCCAGAGTACAATTTAGGAGAAGAAATTGTATGGAAGGAAGGTTCATTTCCATTAGACCAGAAAAGACAGCACATTTGAAGGCCTGAATAAGAAATATTCTGGATAAGATATTGTggctgctaccagaatggctcttgatgatctctacctcttggtatttatacccttatataatctctttcctatagtgtaagctggtcccaggtacttgtttctattgaatagaatagaacaaaagaaatg
+s panTro2.chr1_random 7107868 3820 + 9420409 atgccaccatgtccACCTTTATGCTTTTTAAAGTGAAAAACCATACTAAGAATGAGGCAGCTCAACTTAATAATAAAAACATTTCGCATGtaaagaaatttacaaaagaaaaacaatcaaccccattaaaattgggcaaagggaatgaacagacacttttcaaaggaatacatgcatgcagccaacaaatatac-aaaaaaaagttcaacatcactgatcattagagaaatgcaaatcaaaaccataatgagataccatctcacaccagtcagaatagctatcattaaaaagtcaaaaaataacagatgctagtgagtctatggagaaaagggaatgcttatacactgttggtgggtgtgcaaatcagttcaatcattgtgcaaagaatagtgattcctcaaagagctaaaagcagagctaccattcgacccagtaatcccactactgggtatatacccagatgaatataaaccattctaccataaagacataggcatacaaatgttcattgcagcactgttcacaatagcaaaagtataggatcaacctaaatgcccatcaatgacagattggataaggaaaatgtggtacatatacaccatggaatactatgccgccattaaaaaatgatatcatgtcttttgctggaatat-gatggaccttctattatccttagcaaactaatacaggaacagaaaaccaaatacagcatactctcagttataagtgggagctaaatgatgagaactaatgaacacaaagaataaaacagacactggggtctacttgagggtggagggtgagaaaaggaagagaagcagaaaagataactattgggtactaggtttaatacctgggtgatgaaataatctgtacaataaccccctgtgacaccagtttacgtatgtaacaaatgcccctaaacttaaaataaaagtta
aaaaaaaaAGAAAATTAAAATCTCCTTATCATCTACCTGGTAATATGAAAAACACATATCTTTCATtcattcctttcaactgatgaggaaactgaggcatcgggagttagtaaAAGTCCACATTGAGATATGAGACCCACCACTggctggacgcagtggctcacacctgtaatcccagcactttgggaggccgatgctggtggatcacctaaggtcaggagttcgggaccaggctggccaacatggtgaaacccccatctcttctaaaaatacaaaaattagctgggtgtggtggcaggcacctgtaataccagctactagggaggctgaggcaggagaatcgcttgaacccaggaggtggagtttacagtgagccaaaatcacgccattgcactccagcctgggcaacaagagcaagactctgtcgggaaaagaaaaaaa-aaaaaaaaaCACCACCATCATTTTGCAAGTGTTACCACTATTGTGTGTTAATATTGTAGAAGTATTCCTAATTATGATTTCTTTGTATTCCTAATTGTAATAGCTTTGTACTTGAAAAATTATTGATTCATACTCTATATGTTATTATTTTATATGCGATGACAACAGAATATATTATCATGCTCCTTTTGTGAATCTCATTCATAATATAAAGTATAAATTTGTGATTTTGCTTTAATTTGAAATATTAATTTCAAATATGTTATCACAATTTGATACAAACTATTGACAGTAAATCTGTGGATTAAGTAATGTCTTAGTAGGTATTGGGAAAATTTGAAACTAGTAACATGGAGGACTATTGTCATTGTTTATTTCAAAGCCAGTTAAAATTCTGCAAAGCAGTGTAAATAAAAATAATTTCAAGAAATTTATAAAATACCGAGATTATGGTGTATAAACAACTTTAGATTCTTTGTTTAAGAAATTCTGCCAGTTTGTAATATAtgcttcattcaaagtagctaagggctgtacctggctaata
gtaggcacctaatatttgttgaaaaggaatACTGAGTAGCTGGGACCTCCTGAATAGCTGGGACCACACACATTTAACCTGTATTTATAAAATTGCTGTTTAGAGAATAACATTTGATGGAatcatgcttttactttctgcttatgactcaattgtttgtactgacattaacatcccaaatccttagcatggcctacaaggccctgagcaatgtggcacctgctgaagcctgctgcctcatttaataactctttgtctctttcccagatccagccactctaacattttttagttcctggaccaagacaagctcttcccagaacctgacctttgtacctgttctttattcctggagtatttttcccctgacaaattacttatcatctatcataaatcaggttaaatggcactaactcagggaaggcttccctaactgcctcccttctctaaccaaattaggaacaattatatggccacatagtatcgaatcaagtttataattttaaaataattgggagattttg----ttaacacttgttttcactataagactgtaattacatgcaagtaagaaccatgcctgtttgtttactcctgccacagtcagaatagtgcctggaatatgcagtaagggctgaacaaacactaaataaataaaCAAGTGAATAAATGGATATTGTCTCATTTTTAGAACAGAGTACTAAATGGATCATGAACACTATCTGGAATGTCACGTAGGTAATTTACAAGGGCTACAATTTCAGCTCAGATTTACCTTTTCCTGGATACAGGTcttgataggtctcttgatgtcatttcacttcagattcttctttagaaaacttggacaatagcatttgctgtcttgtccaaattgttactaagaatcaaaagagatatctgacatgaaatgacattggaaaacattaaacacgattgaaataatgctagccaatatggttatTATTAGAAACCAATTACATTTTCA
ACTTAAAAATAGTAATACTTATTGCAGACTCAAATGTGCTCATTCTAAAACAAGTAAATGTTTGCCTGTGGTCTGAGATTCTAATCCACGGAGTTCATTCTAATCCACATTCAACACTATCATGTACCAGTGGGCCTCATAACCCACCTAGCCCTGTGATTTTTCAGGTTCACTTTTCTAAACTTGTGAAGTAAATATTTATTTTCTTAGTTCAGAAGAGGAAAAAAACTCTTGTAATTTTTGCCCATTTCAGGAGAAATCTTGCATATGAAAACAAGAGATAAATATACACAACTGAGGGCTGTGGTTTAAACAAAATCTTGAGAAT-TTTTTTGACCTTATACATTTGTGCTTTAGTATAACAAAATGATATAGACAAAGGTAACTTTTAATAGAACCAGTCACTAAATTAAAAAAATGACAAATTCTTCTGCTTAGCTAAGCAACAGAGAAGGTAAAATACTAATTCAATTCATCAATTTAAGCAATACTCATTAAGAGCCAAGTATGTGCTTACTGAATAAGCTGCTAAGGTTTGGTGGTTACAGAGTGTGCGGTGAAATGATGTCTACATCACAGTCCAACATTCACAGAGTTTAAAAGCCTACCAAGAATCAAGACAGACACAAATACCTAACATAGACGTTTGTATGTGATAAGAGAGCCACAGTACAATTTAGGAGAAGAAATTGTATGGAAGGAAGGTTCATTTCCATTAGACCAGAAAAGACAGCACATTTGAAGGCCTGAATAAGAAATATTCTGGATAAGATATtgtggctgccaccagaatgactcttgatgatctctacctcttggtatttatacccttatataatctctttcctatagtataagctggtcccaggtacttgtttctattgaatagaatcgaacaaaagtaatg
+
diff -r 447c74d98fe5 -r ad3f61801a82 test-data/ortho_ms.tab
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/ortho_ms.tab Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,106 @@
+#Block Seq1_Name Seq1_Start Seq1_End Seq1_Type Seq1_Length Seq1_RepeatNumber Seq1_Unit Seq2_Name Seq2_Start Seq2_End Seq2_Type Seq2_Length Seq2_RepeatNumber Seq2_Unit
+5 hg18.chr1 6483 6496 trinucleotide 13 4 GCT panTro2.chr15 100042575 100042588 trinucleotide 13 4 GCT
+10 hg18.chr1 16317 16329 dinucleotide 12 6 GT panTro2.chr15 100035910 100035921 dinucleotide 11 5 TG
+10 hg18.chr1 18452 18467 mononucleotide 15 15 T panTro2.chr15 100038029 100038042 mononucleotide 13 13 T
+12 hg18.chr1 20736 20756 dinucleotide 20 10 TC panTro2.chr15_random 1091184 1091198 dinucleotide 14 7 TC
+13 hg18.chr1 20774 20786 dinucleotide 12 6 TC panTro2.chrUn 1510792 1510803 dinucleotide 11 5 TC
+13 hg18.chr1 20799 20812 dinucleotide 13 6 TC panTro2.chrUn 1510811 1510831 dinucleotide 20 10 TC
+13 hg18.chr1 20774 20786 dinucleotide 12 6 TC panTro2.chrUn 1510792 1510803 dinucleotide 11 5 TC
+13 hg18.chr1 20799 20812 dinucleotide 13 6 TC panTro2.chrUn 1510811 1510831 dinucleotide 20 10 TC
+14 hg18.chr1 23313 23328 mononucleotide 15 15 A panTro2.chrUn 1508926 1508942 mononucleotide 16 16 A
+14 hg18.chr1 23384 23405 mononucleotide 21 21 T panTro2.chrUn 1508999 1509025 mononucleotide 26 26 T
+15 hg18.chr1 25352 25371 tetranucleotide 19 4 AAAT panTro2.chr15_random 1087905 1087924 tetranucleotide 19 4 AAAT
+16 hg18.chr1 26215 26228 mononucleotide 13 13 A panTro2.chrUn 135175 135189 mononucleotide 14 14 A
+16 hg18.chr1 30483 30495 trinucleotide 12 4 TTC panTro2.chrUn 139435 139447 trinucleotide 12 4 TTC
+16 hg18.chr1 30503 30522 mononucleotide 19 19 T panTro2.chrUn 139457 139482 mononucleotide 25 25 T
+17 hg18.chr1 33660 33676 mononucleotide 16 16 A panTro2.chrUn 9698149 9698162 mononucleotide 13 13 A
+17 hg18.chr1 34037 34047 mononucleotide 10 10 A panTro2.chrUn 9698527 9698537 mononucleotide 10 10 A
+19 hg18.chr1 37182 37192 mononucleotide 10 10 A panTro2.chrUn 9701917 9701928 mononucleotide 11 11 A
+19 hg18.chr1 40345 40377 dinucleotide 32 16 GT panTro2.chrUn 9705094 9705126 dinucleotide 32 16 GT
+19 hg18.chr1 41728 41741 mononucleotide 13 13 A panTro2.chrUn 9706479 9706495 mononucleotide 16 16 A
+20 hg18.chr1 44576 44638 tetranucleotide 62 15 TTTC panTro2.chrUn 9709825 9709899 tetranucleotide 74 18 TTTC
+20 hg18.chr1 44654 44681 tetranucleotide 27 6 TTTC panTro2.chrUn 9709915 9709942 tetranucleotide 27 6 TTTC
+22 hg18.chr1 51726 51744 mononucleotide 18 18 T panTro2.chrUn 9717633 9717652 mononucleotide 19 19 T
+22 hg18.chr1 52103 52120 dinucleotide 17 8 AC panTro2.chrUn 9718011 9718024 dinucleotide 13 6 AC
+25 hg18.chr1 61983 61995 dinucleotide 12 6 TA panTro2.chrUn 9729161 9729173 dinucleotide 12 6 TA
+25 hg18.chr1 62004 62027 tetranucleotide 23 5 ATAC panTro2.chrUn 9729184 9729219 tetranucleotide 35 8 ATAC
+25 hg18.chr1 63706 63720 mononucleotide 14 14 T panTro2.chrUn 9730896 9730914 mononucleotide 18 18 T
+26 hg18.chr1 67038 67059 mononucleotide 21 21 A panTro2.chrUn 9734760 9734777 mononucleotide 17 17 A
+27 hg18.chr1 72077 72088 dinucleotide 11 5 AC panTro2.chrUn 9742946 9742957 dinucleotide 11 5 AC
+28 hg18.chr1 73838 73906 tetranucleotide 68 17 AAAG panTro2.chr15 99975357 99975380 tetranucleotide 23 5 AAAG
+28 hg18.chr1 73838 73906 tetranucleotide 68 17 AAAG panTro2.chr15 99975357 99975380 tetranucleotide 23 5 AAAG
+32 hg18.chr1 81064 81077 mononucleotide 13 13 A panTro2.chrUn 1797471 1797489 mononucleotide 18 18 A
+35 hg18.chr1 82527 82541 mononucleotide 14 14 A panTro2.chr1_random 7070707 7070721 mononucleotide 14 14 A
+40 hg18.chr1 91199 91212 mononucleotide 13 13 A panTro2.chr1_random 7089889 7089900 mononucleotide 11 11 A
+41 hg18.chr1 91538 91554 mononucleotide 16 16 A panTro2.chr1 223998154 223998167 mononucleotide 13 13 A
+42 hg18.chr1 94024 94060 dinucleotide 36 18 AC panTro2.chr1_random 7090945 7090970 dinucleotide 25 12 AC
+42 hg18.chr1 95472 95491 dinucleotide 19 9 AT panTro2.chr1_random 7092383 7092404 dinucleotide 21 10 AT
+43 hg18.chr1 96802 96815 dinucleotide 13 6 TC panTro2.chr1 243988 244001 dinucleotide 13 6 TC
+44 hg18.chr1 98409 98425 mononucleotide 16 16 A panTro2.chr1_random 7095323 7095342 mononucleotide 19 19 A
+45 hg18.chr1 99439 99478 dinucleotide 39 19 GT panTro2.chr1 246661 246696 dinucleotide 35 17 GT
+45 hg18.chr1 100799 100809 mononucleotide 10 10 A panTro2.chr1 248017 248028 mononucleotide 11 11 A
+45 hg18.chr1 101230 101250 mononucleotide 20 20 A panTro2.chr1 248453 248467 mononucleotide 14 14 A
+49 hg18.chr1 111133 111148 mononucleotide 15 15 T panTro2.chr1 260455 260473 mononucleotide 18 18 T
+49 hg18.chr1 111503 111515 trinucleotide 12 4 TAA panTro2.chr1 260828 260846 trinucleotide 18 6 TAA
+49 hg18.chr1 112927 112938 dinucleotide 11 5 CA panTro2.chr1 262255 262267 dinucleotide 12 6 AC
+49 hg18.chr1 112974 112995 dinucleotide 21 10 TA panTro2.chr1 262299 262320 dinucleotide 21 10 TA
+55 hg18.chr1 114709 114728 mononucleotide 19 19 A panTro2.chr1 262958 262973 mononucleotide 15 15 A
+55 hg18.chr1 114709 114728 mononucleotide 19 19 A panTro2.chr1 262958 262973 mononucleotide 15 15 A
+56 hg18.chr1 118460 118475 mononucleotide 15 15 T panTro2.chr1 267602 267617 mononucleotide 15 15 T
+56 hg18.chr1 119541 119556 mononucleotide 15 15 T panTro2.chr1 268682 268695 mononucleotide 13 13 T
+56 hg18.chr1 120154 120164 mononucleotide 10 10 A panTro2.chr1 269287 269300 mononucleotide 13 13 A
+56 hg18.chr1 123929 123958 mononucleotide 29 29 T panTro2.chr1 273095 273130 mononucleotide 35 35 T
+56 hg18.chr1 118460 118475 mononucleotide 15 15 T panTro2.chr1 267602 267617 mononucleotide 15 15 T
+56 hg18.chr1 119541 119556 mononucleotide 15 15 T panTro2.chr1 268682 268695 mononucleotide 13 13 T
+56 hg18.chr1 120154 120164 mononucleotide 10 10 A panTro2.chr1 269287 269300 mononucleotide 13 13 A
+72 hg18.chr1 131317 131331 trinucleotide 14 4 TTA panTro2.chr1_random 7185786 7185800 trinucleotide 14 4 TTA
+72 hg18.chr1 134751 134763 mononucleotide 12 12 A panTro2.chr1_random 7189181 7189197 mononucleotide 16 16 A
+72 hg18.chr1 134994 135006 trinucleotide 12 4 GTG panTro2.chr1_random 7189427 7189439 trinucleotide 12 4 GTG
+72 hg18.chr1 136901 136911 mononucleotide 10 10 A panTro2.chr1_random 7191338 7191350 mononucleotide 12 12 A
+72 hg18.chr1 137298 137339 trinucleotide 41 13 AAC panTro2.chr1_random 7191741 7191782 trinucleotide 41 13 AAC
+72 hg18.chr1 137771 137781 mononucleotide 10 10 A panTro2.chr1_random 7192213 7192224 mononucleotide 11 11 A
+72 hg18.chr1 138639 138652 trinucleotide 13 4 AAT panTro2.chr1_random 7193082 7193095 trinucleotide 13 4 AAT
+72 hg18.chr1 139543 139563 mononucleotide 20 20 A panTro2.chr1_random 7193986 7194009 mononucleotide 23 23 A
+72 hg18.chr1 141348 141361 mononucleotide 13 13 T panTro2.chr1_random 7195790 7195814 mononucleotide 24 24 T
+73 hg18.chr1 145718 145733 mononucleotide 15 15 A panTro2.chr1_random 7202121 7202135 mononucleotide 14 14 A
+74 hg18.chr1 146143 146155 mononucleotide 12 12 T panTro2.chr1_random 7208622 7208632 mononucleotide 10 10 T
+74 hg18.chr1 146971 146985 mononucleotide 14 14 A panTro2.chr1_random 7209449 7209463 mononucleotide 14 14 A
+75 hg18.chr1 148861 148895 dinucleotide 34 17 AC panTro2.chr1_random 7211571 7211605 dinucleotide 34 17 AC
+75 hg18.chr1 150335 150351 mononucleotide 16 16 T panTro2.chr1_random 7213029 7213047 mononucleotide 18 18 T
+75 hg18.chr1 152174 152208 tetranucleotide 34 8 GGAG panTro2.chr1_random 7214870 7214904 tetranucleotide 34 8 GGAG
+75 hg18.chr1 153993 154017 pentanucleotide 24 4 AAAAC panTro2.chr1_random 7216686 7216711 pentanucleotide 25 5 AAAAC
+75 hg18.chr1 155151 155174 mononucleotide 23 23 A panTro2.chr1_random 7217843 7217867 mononucleotide 24 24 A
+75 hg18.chr1 156998 157017 tetranucleotide 19 4 TTTA panTro2.chr1_random 7219691 7219710 tetranucleotide 19 4 TTTA
+75 hg18.chr1 148861 148895 dinucleotide 34 17 AC panTro2.chr1_random 7211571 7211605 dinucleotide 34 17 AC
+75 hg18.chr1 152174 152208 tetranucleotide 34 8 GGAG panTro2.chr1_random 7214870 7214904 tetranucleotide 34 8 GGAG
+75 hg18.chr1 153993 154017 pentanucleotide 24 4 AAAAC panTro2.chr1_random 7216686 7216711 pentanucleotide 25 5 AAAAC
+75 hg18.chr1 154537 154559 mononucleotide 22 22 A panTro2.chr1_random 7217231 7217251 mononucleotide 20 20 A
+75 hg18.chr1 156998 157017 tetranucleotide 19 4 TTTA panTro2.chr1_random 7219691 7219710 tetranucleotide 19 4 TTTA
+76 hg18.chr1 159723 159736 mononucleotide 13 13 T panTro2.chr1 224074251 224074269 mononucleotide 18 18 T
+76 hg18.chr1 160798 160818 pentanucleotide 20 4 GTTTT panTro2.chr1 224075335 224075355 pentanucleotide 20 4 GTTTT
+77 hg18.chr1 164907 164918 dinucleotide 11 5 CA panTro2.chr1_random 7295345 7295356 dinucleotide 11 5 CA
+77 hg18.chr1 165310 165322 mononucleotide 12 12 A panTro2.chr1_random 7295748 7295770 mononucleotide 22 22 A
+77 hg18.chr1 164907 164918 dinucleotide 11 5 CA panTro2.chr1_random 7295345 7295356 dinucleotide 11 5 CA
+77 hg18.chr1 165310 165322 mononucleotide 12 12 A panTro2.chr1_random 7295748 7295770 mononucleotide 22 22 A
+78 hg18.chr1 166066 166095 pentanucleotide 29 5 AAAAC panTro2.chr1 224080667 224080691 pentanucleotide 24 4 AAAAC
+83 hg18.chr1 219668 219689 tetranucleotide 21 5 TAAA panTro2.chr3 77587413 77587435 tetranucleotide 22 5 TAAA
+87 hg18.chr1 222298 222309 mononucleotide 11 11 T panTro2.chrUn 1781936 1781946 mononucleotide 10 10 T
+87 hg18.chr1 222298 222309 mononucleotide 11 11 T panTro2.chrUn 1781936 1781946 mononucleotide 10 10 T
+93 hg18.chr1 227392 227408 mononucleotide 16 16 A panTro2.chr1_random 7325593 7325616 mononucleotide 23 23 A
+93 hg18.chr1 228854 228869 mononucleotide 15 15 A panTro2.chr1_random 7327066 7327078 mononucleotide 12 12 A
+94 hg18.chr1 231193 231209 mononucleotide 16 16 T panTro2.chr1 223990552 223990572 mononucleotide 20 20 T
+97 hg18.chr1 235198 235229 tetranucleotide 31 7 TTTA panTro2.chr1_random 7331178 7331221 tetranucleotide 43 10 TTTA
+97 hg18.chr1 235279 235294 mononucleotide 15 15 T panTro2.chr1_random 7331271 7331290 mononucleotide 19 19 T
+97 hg18.chr1 237516 237529 mononucleotide 13 13 A panTro2.chr1_random 7333512 7333527 mononucleotide 15 15 A
+98 hg18.chr1 237855 237870 mononucleotide 15 15 A panTro2.chr1 223998154 223998167 mononucleotide 13 13 A
+99 hg18.chr1 240341 240375 dinucleotide 34 17 AC panTro2.chr1_random 7334566 7334615 dinucleotide 49 24 AC
+99 hg18.chr1 241787 241806 dinucleotide 19 9 AT panTro2.chr1_random 7336030 7336051 dinucleotide 21 10 AT
+99 hg18.chr1 243117 243130 dinucleotide 13 6 TC panTro2.chr1_random 7337363 7337376 dinucleotide 13 6 TC
+99 hg18.chr1 244724 244746 mononucleotide 22 22 A panTro2.chr1_random 7338970 7338987 mononucleotide 17 17 A
+99 hg18.chr1 240341 240375 dinucleotide 34 17 AC panTro2.chr1_random 7334566 7334615 dinucleotide 49 24 AC
+99 hg18.chr1 241787 241806 dinucleotide 19 9 AT panTro2.chr1_random 7336030 7336051 dinucleotide 21 10 AT
+99 hg18.chr1 243117 243130 dinucleotide 13 6 TC panTro2.chr1_random 7337363 7337376 dinucleotide 13 6 TC
+99 hg18.chr1 244724 244746 mononucleotide 22 22 A panTro2.chr1_random 7338970 7338987 mononucleotide 17 17 A
+99 hg18.chr1 245760 245793 dinucleotide 33 16 GT panTro2.chr1_random 7340006 7340026 dinucleotide 20 10 TG
+100 hg18.chr1 247114 247124 mononucleotide 10 10 A panTro2.chr1_random 7108808 7108818 mononucleotide 10 10 A
+100 hg18.chr1 247545 247565 mononucleotide 20 20 A panTro2.chr1_random 7109243 7109259 mononucleotide 16 16 A
diff -r 447c74d98fe5 -r ad3f61801a82 test-data/ortho_ms_mut.tab
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/ortho_ms_mut.tab Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,75 @@
+#Window Species_1 Window_Start Window_End Species_2 Groupby_Feature SubGroupby_Feature Mutability Count
+5 hg18.chr1 6483 6496 panTro2.chr15 100042575 100042588 trinucleotide GCT 0.00e+00 4
+10 hg18.chr1 18452 18467 panTro2.chr15 100038029 100038042 mononucleotide T 4.00e+00 13
+10 hg18.chr1 18452 18467 panTro2.chr15 100038029 100038042 dinucleotide GT 1.00e+00 5
+12 hg18.chr1 20736 20756 panTro2.chr15_random 1091184 1091198 dinucleotide TC 9.00e+00 7
+13 hg18.chr1 20799 20812 panTro2.chrUn 1510811 1510831 dinucleotide TC 1.10e+01 24
+14 hg18.chr1 23384 23405 panTro2.chrUn 1508999 1509025 mononucleotide A 1.00e+00 15
+14 hg18.chr1 23384 23405 panTro2.chrUn 1508999 1509025 mononucleotide T 1.30e+01 36
+15 hg18.chr1 25352 25371 panTro2.chr15_random 1087905 1087924 tetranucleotide AAAT 0.00e+00 4
+16 hg18.chr1 30503 30522 panTro2.chrUn 139457 139482 trinucleotide TTC 0.00e+00 4
+16 hg18.chr1 30503 30522 panTro2.chrUn 139457 139482 mononucleotide A 1.00e+00 13
+16 hg18.chr1 30503 30522 panTro2.chrUn 139457 139482 mononucleotide T 1.85e+01 32
+17 hg18.chr1 34037 34047 panTro2.chrUn 9698527 9698537 mononucleotide A 4.50e+00 23
+19 hg18.chr1 41728 41741 panTro2.chrUn 9706479 9706495 mononucleotide A 5.00e+00 23
+19 hg18.chr1 41728 41741 panTro2.chrUn 9706479 9706495 dinucleotide GT 0.00e+00 16
+20 hg18.chr1 44654 44681 panTro2.chrUn 9709915 9709942 tetranucleotide TTTC 4.50e+00 21
+22 hg18.chr1 52103 52120 panTro2.chrUn 9718011 9718024 mononucleotide T 1.00e+00 18
+22 hg18.chr1 52103 52120 panTro2.chrUn 9718011 9718024 dinucleotide AC 4.00e+00 6
+25 hg18.chr1 63706 63720 panTro2.chrUn 9730896 9730914 mononucleotide T 1.60e+01 14
+25 hg18.chr1 63706 63720 panTro2.chrUn 9730896 9730914 dinucleotide TA 0.00e+00 6
+25 hg18.chr1 63706 63720 panTro2.chrUn 9730896 9730914 tetranucleotide ATAC 9.00e+00 5
+26 hg18.chr1 67038 67059 panTro2.chrUn 9734760 9734777 mononucleotide A 1.60e+01 17
+27 hg18.chr1 72077 72088 panTro2.chrUn 9742946 9742957 dinucleotide AC 0.00e+00 5
+28 hg18.chr1 73838 73906 panTro2.chr15 99975357 99975380 tetranucleotide AAAG 1.44e+02 10
+32 hg18.chr1 81064 81077 panTro2.chrUn 1797471 1797489 mononucleotide A 2.50e+01 13
+35 hg18.chr1 82527 82541 panTro2.chr1_random 7070707 7070721 mononucleotide A 0.00e+00 14
+40 hg18.chr1 91199 91212 panTro2.chr1_random 7089889 7089900 mononucleotide A 4.00e+00 11
+41 hg18.chr1 91538 91554 panTro2.chr1 223998154 223998167 mononucleotide A 9.00e+00 13
+42 hg18.chr1 95472 95491 panTro2.chr1_random 7092383 7092404 dinucleotide AT 1.85e+01 22
+42 hg18.chr1 95472 95491 panTro2.chr1_random 7092383 7092404 dinucleotide AC 3.60e+01 12
+43 hg18.chr1 96802 96815 panTro2.chr1 243988 244001 dinucleotide TC 0.00e+00 6
+44 hg18.chr1 98409 98425 panTro2.chr1_random 7095323 7095342 mononucleotide A 9.00e+00 16
+45 hg18.chr1 101230 101250 panTro2.chr1 248453 248467 mononucleotide A 1.85e+01 25
+45 hg18.chr1 101230 101250 panTro2.chr1 248453 248467 dinucleotide GT 4.00e+00 17
+49 hg18.chr1 112974 112995 panTro2.chr1 262299 262320 trinucleotide TAA 4.00e+00 4
+49 hg18.chr1 112974 112995 panTro2.chr1 262299 262320 dinucleotide TA 5.00e-01 15
+49 hg18.chr1 112974 112995 panTro2.chr1 262299 262320 mononucleotide T 9.00e+00 15
+49 hg18.chr1 112974 112995 panTro2.chr1 262299 262320 dinucleotide CA 1.00e+00 5
+55 hg18.chr1 114709 114728 panTro2.chr1 262958 262973 mononucleotide A 1.60e+01 30
+56 hg18.chr1 120154 120164 panTro2.chr1 269287 269300 mononucleotide A 8.89e+00 109
+56 hg18.chr1 120154 120164 panTro2.chr1 269287 269300 mononucleotide T 8.80e+00 89
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 mononucleotide T 3.65e+01 65
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 trinucleotide GTG 0.00e+00 8
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 trinucleotide AAC 0.00e+00 21
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 mononucleotide A 8.33e+00 52
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 trinucleotide TTA 0.00e+00 4
+72 hg18.chr1 141348 141361 panTro2.chr1_random 7195790 7195814 trinucleotide AAT 0.00e+00 25
+73 hg18.chr1 145718 145733 panTro2.chr1_random 7202121 7202135 mononucleotide A 1.00e+00 14
+74 hg18.chr1 146971 146985 panTro2.chr1_random 7209449 7209463 mononucleotide A 2.00e+00 24
+74 hg18.chr1 146971 146985 panTro2.chr1_random 7209449 7209463 mononucleotide T 4.00e+00 10
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 mononucleotide T 4.00e+00 16
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 tetranucleotide GGAG 0.00e+00 16
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 tetranucleotide TTTA 0.00e+00 24
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 pentanucleotide AAAAC 1.00e+00 8
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 mononucleotide A 3.00e+00 61
+75 hg18.chr1 156998 157017 panTro2.chr1_random 7219691 7219710 dinucleotide AC 0.00e+00 34
+76 hg18.chr1 160798 160818 panTro2.chr1 224075335 224075355 mononucleotide T 2.50e+01 13
+76 hg18.chr1 160798 160818 panTro2.chr1 224075335 224075355 pentanucleotide GTTTT 0.00e+00 4
+77 hg18.chr1 165310 165322 panTro2.chr1_random 7295748 7295770 mononucleotide A 1.00e+02 24
+77 hg18.chr1 165310 165322 panTro2.chr1_random 7295748 7295770 dinucleotide CA 0.00e+00 10
+78 hg18.chr1 166066 166095 panTro2.chr1 224080667 224080691 pentanucleotide AAAAC 1.00e+00 4
+83 hg18.chr1 219668 219689 panTro2.chr3 77587413 77587435 tetranucleotide TAAA 0.00e+00 5
+87 hg18.chr1 222298 222309 panTro2.chrUn 1781936 1781946 mononucleotide T 1.00e+00 20
+93 hg18.chr1 228854 228869 panTro2.chr1_random 7327066 7327078 mononucleotide A 2.90e+01 31
+94 hg18.chr1 231193 231209 panTro2.chr1 223990552 223990572 mononucleotide T 1.60e+01 16
+97 hg18.chr1 237516 237529 panTro2.chr1_random 7333512 7333527 mononucleotide A 1.00e+01 28
+97 hg18.chr1 237516 237529 panTro2.chr1_random 7333512 7333527 mononucleotide T 1.60e+01 15
+97 hg18.chr1 237516 237529 panTro2.chr1_random 7333512 7333527 tetranucleotide TTTA 9.00e+00 7
+98 hg18.chr1 237855 237870 panTro2.chr1 223998154 223998167 mononucleotide A 4.00e+00 13
+99 hg18.chr1 245760 245793 panTro2.chr1_random 7340006 7340026 dinucleotide AT 2.50e+01 52
+99 hg18.chr1 245760 245793 panTro2.chr1_random 7340006 7340026 dinucleotide TC 1.67e+01 64
+99 hg18.chr1 245760 245793 panTro2.chr1_random 7340006 7340026 mononucleotide A 2.50e+01 34
+99 hg18.chr1 245760 245793 panTro2.chr1_random 7340006 7340026 dinucleotide GT 2.31e+01 114
+99 hg18.chr1 245760 245793 panTro2.chr1_random 7340006 7340026 dinucleotide AC 4.90e+01 34
+100 hg18.chr1 247545 247565 panTro2.chr1_random 7109243 7109259 mononucleotide A 8.00e+00 26
diff -r 447c74d98fe5 -r ad3f61801a82 tool_conf.xml.sample
--- a/tool_conf.xml.sample Wed Sep 24 15:05:38 2008 -0400
+++ b/tool_conf.xml.sample Wed Sep 24 18:20:39 2008 -0400
@@ -134,6 +134,8 @@
<tool file="regVariation/getIndelRates_3way.xml" />
<tool file="regVariation/substitutions.xml" />
<tool file="regVariation/substitution_rates.xml" />
+ <tool file="regVariation/microsats_alignment_level.xml" />
+ <tool file="regVariation/microsats_mutability.xml" />
</section>
<section name="Multiple regression" id="multReg">
<tool file="regVariation/linear_regression.xml" />
diff -r 447c74d98fe5 -r ad3f61801a82 tools/regVariation/getIndelRates_3way.xml
--- a/tools/regVariation/getIndelRates_3way.xml Wed Sep 24 15:05:38 2008 -0400
+++ b/tools/regVariation/getIndelRates_3way.xml Wed Sep 24 18:20:39 2008 -0400
@@ -5,7 +5,7 @@
#if $region.type == "align"
"None"
#else
- $region.input2 $input2_dbkey $input2_chromCol,$input2_startCol,$input2_endCol,$input2_strandCol
+ $region.input2 $input2.dbkey $input2.metadata.chromCol,$input2.metadata.startCol,$input2.metadata.endCol,$input2.metadata.strandCol
#end if
</command>
<inputs>
diff -r 447c74d98fe5 -r ad3f61801a82 tools/regVariation/microsats_alignment_level.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/regVariation/microsats_alignment_level.py Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,323 @@
+ #!/usr/bin/env python
+#Guruprasad Ananda
+"""
+Uses SPUTNIK to fetch microsatellites and extracts orthologous repeats from the sputnik output.
+"""
+from galaxy import eggs
+import sys, os, tempfile, string, math, re
+
+def reverse_complement(text):
+ DNA_COMP = string.maketrans( "ACGTacgt", "TGCAtgca" )
+ comp = [ch for ch in text.translate(DNA_COMP)]
+ comp.reverse()
+ return "".join(comp)
+
+def main():
+ if len(sys.argv) != 8:
+ print >>sys.stderr, "Insufficient number of arguments."
+ sys.exit()
+
+ infile = open(sys.argv[1],'r')
+ separation = int(sys.argv[2])
+ outfile = sys.argv[3]
+ align_type = sys.argv[4]
+ if align_type == "2way":
+ align_type_len = 2
+ elif align_type == "3way":
+ align_type_len = 3
+ mono_threshold = int(sys.argv[5])
+ non_mono_threshold = int(sys.argv[6])
+ allow_different_units = int(sys.argv[7])
+
+ print "Min distance = %d bp; Min threshold for mono repeats = %d; Min threshold for non-mono repeats = %d; Allow different motifs = %s" %(separation, mono_threshold, non_mono_threshold, allow_different_units==1)
+ try:
+ fout = open(outfile, "w")
+ print >>fout, "#Block\tSeq1_Name\tSeq1_Start\tSeq1_End\tSeq1_Type\tSeq1_Length\tSeq1_RepeatNumber\tSeq1_Unit\tSeq2_Name\tSeq2_Start\tSeq2_End\tSeq2_Type\tSeq2_Length\tSeq2_RepeatNumber\tSeq2_Unit"
+ #sputnik_cmd = os.path.join(os.path.split(sys.argv[0])[0], "sputnik")
+ sputnik_cmd = "bx-sputnik"
+ input = infile.read()
+ skipped = 0
+ block_num = 0
+ input = input.replace('\r','\n')
+ for block in input.split('\n\n'):
+ block_num += 1
+ tmpin = tempfile.NamedTemporaryFile()
+ tmpout = tempfile.NamedTemporaryFile()
+ tmpin.write(block.strip())
+ blk = tmpin.read()
+ cmdline = sputnik_cmd + " " + tmpin.name + " > /dev/null 2>&1 >> " + tmpout.name
+ try:
+ os.system(cmdline)
+ except Exception, es:
+ continue
+ sputnik_out = tmpout.read()
+ tmpin.close()
+ tmpout.close()
+ if sputnik_out != "":
+ if len(block.split('>')[1:]) != 2: #len(sputnik_out.split('>')):
+ skipped += 1
+ continue
+ align_block = block.strip().split('>')
+
+ lendict = {'mononucleotide':1, 'dinucleotide':2, 'trinucleotide':3, 'tetranucleotide':4, 'pentanucleotide':5, 'hexanucleotide':6}
+ blockdict={}
+ r=0
+ namelist=[]
+ for k,sput_block in enumerate(sputnik_out.split('>')[1:]):
+ whole_seq = ''.join(align_block[k+1].split('\n')[1:]).replace('\n','').strip()
+ p = re.compile('\n(\S*nucleotide)')
+ repeats = p.split(sput_block.strip())
+ repeats_count = len(repeats)
+ j = 1
+ name = repeats[0].strip()
+ try:
+ coords = re.search('\d+[-_:]\d+',name).group()
+ coords = coords.replace('_','-').replace(':','-')
+ except Exception, e:
+ coords = '0-0'
+ pass
+ r += 1
+ blockdict[r]={}
+ try:
+ sp_name = name[:name.index('.')]
+ chr_name = name[name.index('.'):name.index('(')]
+ namelist.append(sp_name + chr_name)
+ except:
+ namelist.append(name[:20])
+ while j < repeats_count:
+ try:
+ if repeats[j].strip() not in lendict:
+ j += 2
+ continue
+
+ if blockdict[r].has_key('types'):
+ blockdict[r]['types'].append(repeats[j].strip()) #type of microsat
+ else:
+ blockdict[r]['types'] = [repeats[j].strip()] #type of microsat
+
+ sequence = ''.join(align_block[r].split('\n')[1:]).replace('\n','').strip()
+ start = int(repeats[j+1].split('--')[0].split(':')[0].strip())
+ #check to see if there are gaps before the start of the repeat, and change the start accordingly
+ sgaps = 0
+ ch_pos = start - 1
+ while ch_pos >= 0:
+ if whole_seq[ch_pos] == '-':
+ sgaps += 1
+ else:
+ break #break at the 1st non-gap character
+ ch_pos -= 1
+ if blockdict[r].has_key('starts'):
+ blockdict[r]['starts'].append(start+sgaps) #start co-ords adjusted with alignment co-ords to include GAPS
+ else:
+ blockdict[r]['starts'] = [start+sgaps]
+
+ end = int(repeats[j+1].split('--')[0].split(':')[1].strip())
+ #check to see if there are gaps after the end of the repeat, and change the end accordingly
+ egaps = 0
+ for ch in whole_seq[end:]:
+ if ch == '-':
+ egaps += 1
+ else:
+ break #break at the 1st non-gap character
+ if blockdict[r].has_key('ends'):
+ blockdict[r]['ends'].append(end+egaps) #end co-ords adjusted with alignment co-ords to include GAPS
+ else:
+ blockdict[r]['ends'] = [end+egaps]
+
+ repeat_seq = ''.join(repeats[j+1].replace('\r','\n').split('\n')[1:]).strip() #Repeat Sequence
+ repeat_len = repeats[j+1].split('--')[1].split()[1].strip()
+ gap_count = repeat_seq.count('-')
+ #print repeats[j+1].split('--')[1], len(repeat_seq), repeat_len, gap_count
+ repeat_len = str(int(repeat_len) - gap_count)
+
+ rel_start = blockdict[r]['starts'][-1]
+ gaps_before_start = whole_seq[:rel_start].count('-')
+
+ if blockdict[r].has_key('gaps_before_start'):
+ blockdict[r]['gaps_before_start'].append(gaps_before_start) #lengths
+ else:
+ blockdict[r]['gaps_before_start'] = [gaps_before_start] #lengths
+
+ whole_seq_start= int(coords.split('-')[0])
+ if blockdict[r].has_key('whole_seq_start'):
+ blockdict[r]['whole_seq_start'].append(whole_seq_start) #lengths
+ else:
+ blockdict[r]['whole_seq_start'] = [whole_seq_start] #lengths
+
+ if blockdict[r].has_key('lengths'):
+ blockdict[r]['lengths'].append(repeat_len) #lengths
+ else:
+ blockdict[r]['lengths'] = [repeat_len] #lengths
+
+ if blockdict[r].has_key('counts'):
+ blockdict[r]['counts'].append(str(int(repeat_len)/lendict[repeats[j].strip()])) #Repeat Unit
+ else:
+ blockdict[r]['counts'] = [str(int(repeat_len)/lendict[repeats[j].strip()])] #Repeat Unit
+
+ if blockdict[r].has_key('units'):
+ blockdict[r]['units'].append(repeat_seq[:lendict[repeats[j].strip()]]) #Repeat Unit
+ else:
+ blockdict[r]['units'] = [repeat_seq[:lendict[repeats[j].strip()]]] #Repeat Unit
+
+ except Exception, eh:
+ pass
+ j+=2
+ #check the co-ords of all repeats corresponding to a sequence and remove adjacent repeats separated by less than the user-specified 'separation'.
+ delete_index_list = []
+ for ind, item in enumerate(blockdict[r]['ends']):
+ try:
+ if blockdict[r]['starts'][ind+1]-item < separation:
+ if ind not in delete_index_list:
+ delete_index_list.append(ind)
+ if ind+1 not in delete_index_list:
+ delete_index_list.append(ind+1)
+ except Exception, ek:
+ pass
+ for index in delete_index_list: #mark them for deletion
+ try:
+ blockdict[r]['starts'][index] = 'marked'
+ blockdict[r]['ends'][index] = 'marked'
+ blockdict[r]['types'][index] = 'marked'
+ blockdict[r]['gaps_before_start'][index] = 'marked'
+ blockdict[r]['whole_seq_start'][index] = 'marked'
+ blockdict[r]['lengths'][index] = 'marked'
+ blockdict[r]['counts'][index] = 'marked'
+ blockdict[r]['units'][index] = 'marked'
+ except Exception, ej:
+ pass
+ #remove 'marked' elements from all the lists
+ """
+ for key in blockdict[r].keys():
+ for elem in blockdict[r][key]:
+ if elem == 'marked':
+ blockdict[r][key].remove(elem)
+ """
+ #print blockdict
+
+ #make sure that the blockdict has keys for both the species
+ if (1 not in blockdict) or (2 not in blockdict):
+ continue
+
+ visited_2 = [0 for x in range(len(blockdict[2]['starts']))]
+ for ind1,coord_s1 in enumerate(blockdict[1]['starts']):
+ if coord_s1 == 'marked':
+ continue
+ coord_e1 = blockdict[1]['ends'][ind1]
+ out = []
+ for ind2,coord_s2 in enumerate(blockdict[2]['starts']):
+ if coord_s2 == 'marked':
+ visited_2[ind2] = 1
+ continue
+ coord_e2 = blockdict[2]['ends'][ind2]
+ #skip if the 2 repeats are not of the same type or don't have the same repeating unit.
+ if allow_different_units == 0:
+ if (blockdict[1]['types'][ind1] != blockdict[2]['types'][ind2]):
+ continue
+ else:
+ if (blockdict[1]['units'][ind1] not in blockdict[2]['units'][ind2]*2) and (reverse_complement(blockdict[1]['units'][ind1]) not in blockdict[2]['units'][ind2]*2):
+ continue
+ #print >>sys.stderr, (reverse_complement(blockdict[1]['units'][ind1]) not in blockdict[2]['units'][ind2]*2)
+ #skip if the repeat number thresholds are not met
+ if blockdict[1]['types'][ind1] == 'mononucleotide':
+ if (int(blockdict[1]['counts'][ind1]) < mono_threshold):
+ continue
+ else:
+ if (int(blockdict[1]['counts'][ind1]) < non_mono_threshold):
+ continue
+
+ if blockdict[2]['types'][ind2] == 'mononucleotide':
+ if (int(blockdict[2]['counts'][ind2]) < mono_threshold):
+ continue
+ else:
+ if (int(blockdict[2]['counts'][ind2]) < non_mono_threshold):
+ continue
+ #print "s1,e1=%s,%s; s2,e2=%s,%s" %(coord_s1,coord_e1,coord_s2,coord_e2)
+ if (coord_s1 in range(coord_s2,coord_e2)) or (coord_e1 in range(coord_s2,coord_e2)):
+ out.append(str(block_num))
+ out.append(namelist[0])
+ rel_start = blockdict[1]['whole_seq_start'][ind1] + coord_s1 - blockdict[1]['gaps_before_start'][ind1]
+ rel_end = rel_start + int(blockdict[1]['lengths'][ind1])
+ out.append(str(rel_start))
+ out.append(str(rel_end))
+ out.append(blockdict[1]['types'][ind1])
+ out.append(blockdict[1]['lengths'][ind1])
+ out.append(blockdict[1]['counts'][ind1])
+ out.append(blockdict[1]['units'][ind1])
+ out.append(namelist[1])
+ rel_start = blockdict[2]['whole_seq_start'][ind2] + coord_s2 - blockdict[2]['gaps_before_start'][ind2]
+ rel_end = rel_start + int(blockdict[2]['lengths'][ind2])
+ out.append(str(rel_start))
+ out.append(str(rel_end))
+ out.append(blockdict[2]['types'][ind2])
+ out.append(blockdict[2]['lengths'][ind2])
+ out.append(blockdict[2]['counts'][ind2])
+ out.append(blockdict[2]['units'][ind2])
+ print >>fout, '\t'.join(out)
+ visited_2[ind2] = 1
+ out=[]
+
+ if 0 in visited_2: #there are still some elements in 2nd set which haven't found orthologs yet.
+ for ind2, coord_s2 in enumerate(blockdict[2]['starts']):
+ if coord_s2 == 'marked':
+ continue
+ if visited_2[ind] != 0:
+ continue
+ coord_e2 = blockdict[2]['ends'][ind2]
+ out = []
+ for ind1,coord_s1 in enumerate(blockdict[1]['starts']):
+ if coord_s1 == 'marked':
+ continue
+ coord_e1 = blockdict[1]['ends'][ind1]
+ #skip if the 2 repeats are not of the same type or don't have the same repeating unit.
+ if allow_different_units == 0:
+ if (blockdict[1]['types'][ind1] != blockdict[2]['types'][ind2]):
+ continue
+ else:
+ if (blockdict[1]['units'][ind1] not in blockdict[2]['units'][ind2]*2):# and reverse_complement(blockdict[1]['units'][ind1]) not in blockdict[2]['units'][ind2]*2:
+ continue
+ #skip if the repeat number thresholds are not met
+ if blockdict[1]['types'][ind1] == 'mononucleotide':
+ if (int(blockdict[1]['counts'][ind1]) < mono_threshold):
+ continue
+ else:
+ if (int(blockdict[1]['counts'][ind1]) < non_mono_threshold):
+ continue
+
+ if blockdict[2]['types'][ind2] == 'mononucleotide':
+ if (int(blockdict[2]['counts'][ind2]) < mono_threshold):
+ continue
+ else:
+ if (int(blockdict[2]['counts'][ind2]) < non_mono_threshold):
+ continue
+
+ if (coord_s2 in range(coord_s1,coord_e1)) or (coord_e2 in range(coord_s1,coord_e1)):
+ out.append(str(block_num))
+ out.append(namelist[0])
+ rel_start = blockdict[1]['whole_seq_start'][ind1] + coord_s1 - blockdict[1]['gaps_before_start'][ind1]
+ rel_end = rel_start + int(blockdict[1]['lengths'][ind1])
+ out.append(str(rel_start))
+ out.append(str(rel_end))
+ out.append(blockdict[1]['types'][ind1])
+ out.append(blockdict[1]['lengths'][ind1])
+ out.append(blockdict[1]['counts'][ind1])
+ out.append(blockdict[1]['units'][ind1])
+ out.append(namelist[1])
+ rel_start = blockdict[2]['whole_seq_start'][ind2] + coord_s2 - blockdict[2]['gaps_before_start'][ind2]
+ rel_end = rel_start + int(blockdict[2]['lengths'][ind2])
+ out.append(str(rel_start))
+ out.append(str(rel_end))
+ out.append(blockdict[2]['types'][ind2])
+ out.append(blockdict[2]['lengths'][ind2])
+ out.append(blockdict[2]['counts'][ind2])
+ out.append(blockdict[2]['units'][ind2])
+ print >>fout, '\t'.join(out)
+ visited_2[ind2] = 1
+ out=[]
+
+ #print >>fout, blockdict
+ except Exception, exc:
+ print >>sys.stderr, "type(exc),args,exc: %s, %s, %s" %(type(exc), exc.args, exc)
+
+if __name__ == "__main__":
+ main()
+
diff -r 447c74d98fe5 -r ad3f61801a82 tools/regVariation/microsats_alignment_level.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/regVariation/microsats_alignment_level.xml Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,61 @@
+<tool id="microsats_align1" name="Extract Orthologous Microsatellites">
+ <description> from pair-wise alignments</description>
+ <command interpreter="python">
+ microsats_alignment_level.py $input1 $separation $out_file1 "2way" $mono_threshold $non_mono_threshold $allow_different_units
+ </command>
+ <inputs>
+ <page>
+ <param format="fasta" name="input1" type="data" label="Select data"/>
+ <param name="separation" size="10" type="integer" value="10" label="Minimum basepair distance between adjacent microsatellites"
+ help="A value of 10 means: Adjacent microsatellites separated by less than 10 basepairs will be excluded from the output."/>
+ <param name="mono_threshold" size="10" type="integer" value="9" label="Minimum Threshold for the number of repeats for mononucleotide microsatellites"
+ help="A value of 9 means: All mononucleotide microsatellites having fewer than 9 repeats will be excluded from the output."/>
+ <param name="non_mono_threshold" size="10" type="integer" value="4" label="Minimum Threshold for the number of repeats for non-mononucleotide microsatellites"
+ help="A value of 4 means: All non-mononucleotide microsatellites having fewer than 4 repeats will be excluded from the output."/>
+ <param name="allow_different_units" size="5" type="select" label="Allow orthologous positions to have different microsatellite repeat units/motifs?">
+ <option value="0" selected="true">No</option>
+ <option value="1">Yes</option>
+ </param>
+ </page>
+ </inputs>
+ <outputs>
+ <data format="tabular" name="out_file1" metadata_source="input1"/>
+ </outputs>
+ <requirements>
+ <requirement type="binary">bx-sputnik</requirement>
+ </requirements>
+ <tests>
+ <test>
+ <param name="input1" value="2way.maf"/>
+ <param name="separation" value="10"/>
+ <param name="mono_threshold" value="9"/>
+ <param name="non_mono_threshold" value="4"/>
+ <param name="allow_different_units" value="0"/>
+ <output name="out_file1" file="ortho_ms.tab"/>
+ </test>
+ </tests>
+
+ <help>
+
+.. class:: infomark
+
+**What it does**
+
+This tool uses a modified version of SPUTNIK to fetch microsatellite repeats from the input fasta sequences and extracts orthologous repeats from the sputnik output. The modified version allows detection of mononucleotide microsatellites. More information on SPUTNIK can be found on this website_. The modified version is available here_.
+
+-----
+
+.. class:: warningmark
+
+**Note**
+
+- Any block/s not containing exactly 2 species will be omitted.
+
+- This tool will filter out microsatellites based on the user input values for minimum distance and repeat number thresholds. Further, this tool will also filter out microsatellites that have no orthologous microsatellites in one of the species.
+
+.. _website: http://espressosoftware.com/pages/sputnik.jsp
+.. _here: http://www.bx.psu.edu/svn/universe/dependencies/sputnik/
+</help>
+
+
+</tool>
\ No newline at end of file
diff -r 447c74d98fe5 -r ad3f61801a82 tools/regVariation/microsats_mutability.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/regVariation/microsats_mutability.py Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,504 @@
+#!/usr/bin/env python
+#Guruprasad Ananda
+"""
+This tool computes microsatellite mutability for the orthologous microsatellites fetched from 'Extract Orthologous Microsatellites from pair-wise alignments' tool.
+"""
+from galaxy import eggs
+import sys, string, re, commands, tempfile, os, fileinput
+from galaxy.tools.util.galaxyops import *
+from bx.intervals.io import *
+from bx.intervals.operations import quicksect
+
+fout = open(sys.argv[2],'w')
+p_group = int(sys.argv[3]) #primary "group-by" feature
+p_bin_size = int(sys.argv[4])
+s_group = int(sys.argv[5]) #sub-group by feature
+s_bin_size = int(sys.argv[6])
+mono_threshold = 9
+non_mono_threshold = 4
+p_group_cols = [p_group, p_group+7]
+s_group_cols = [s_group, s_group+7]
+num_generations = int(sys.argv[7])
+region = sys.argv[8]
+int_file = sys.argv[9]
+if int_file != "None": #User has specified an interval file
+ try:
+ fint = open(int_file, 'r')
+ dbkey_i = sys.argv[10]
+ chr_col_i, start_col_i, end_col_i, strand_col_i = parse_cols_arg( sys.argv[11] )
+ except:
+ stop_err("Unable to open input Interval file")
+
+def stop_err(msg):
+ sys.stderr.write(msg)
+ sys.exit()
+
+def reverse_complement(text):
+ DNA_COMP = string.maketrans( "ACGTacgt", "TGCAtgca" )
+ comp = [ch for ch in text.translate(DNA_COMP)]
+ comp.reverse()
+ return "".join(comp)
+
+def get_unique_elems(elems):
+ seen=set()
+ return[x for x in elems if x not in seen and not seen.add(x)]
+
+def get_binned_lists(uniqlist, binsize):
+ binnedlist=[]
+ uniqlist.sort()
+ start = int(uniqlist[0])
+ bin_ind=0
+ l_ind=0
+ binnedlist.append([])
+ while l_ind < len(uniqlist):
+ elem = int(uniqlist[l_ind])
+ if elem in range(start,start+binsize):
+ binnedlist[bin_ind].append(elem)
+ else:
+ start += binsize
+ bin_ind += 1
+ binnedlist.append([])
+ binnedlist[bin_ind].append(elem)
+ l_ind += 1
+ return binnedlist
+
+def fetch_weight(H,C,t):
+ if (H-(C-H)) < t:
+ return 2.0
+ else:
+ return 1.0
+
+def mutabilityEstimator(repeats1,repeats2,thresholds):
+ mut_num = 0.0 #Mutability Numerator
+ mut_den = 0.0 #Mutability denominator
+ for ind,H in enumerate(repeats1):
+ C = repeats2[ind]
+ t = thresholds[ind]
+ w = fetch_weight(H,C,t)
+ mut_num += ((H-C)*(H-C)*w)
+ mut_den += w
+ return [mut_num, mut_den]
+
+def output_writer(blk, blk_lines):
+ global winspecies, speciesind
+ all_elems_1=[]
+ all_elems_2=[]
+ all_s_elems_1=[]
+ all_s_elems_2=[]
+ for bline in blk_lines:
+ if not(bline):
+ continue
+ items = bline.split('\t')
+ seq1 = items[1]
+ start1 = items[2]
+ end1 = items[3]
+ seq2 = items[8]
+ start2 = items[9]
+ end2 = items[10]
+ if p_group_cols[0] == 6:
+ items[p_group_cols[0]] = int(items[p_group_cols[0]])
+ items[p_group_cols[1]] = int(items[p_group_cols[1]])
+ if s_group_cols[0] == 6:
+ items[s_group_cols[0]] = int(items[s_group_cols[0]])
+ items[s_group_cols[1]] = int(items[s_group_cols[1]])
+ all_elems_1.append(items[p_group_cols[0]]) #primary col elements for species 1
+ all_elems_2.append(items[p_group_cols[1]]) #primary col elements for species 2
+ if s_group_cols[0] != -1: #sub-group is not None
+ all_s_elems_1.append(items[s_group_cols[0]]) #secondary col elements for species 1
+ all_s_elems_2.append(items[s_group_cols[1]]) #secondary col elements for species 2
+ uniq_elems_1 = get_unique_elems(all_elems_1)
+ uniq_elems_2 = get_unique_elems(all_elems_2)
+ if s_group_cols[0] != -1:
+ uniq_s_elems_1 = get_unique_elems(all_s_elems_1)
+ uniq_s_elems_2 = get_unique_elems(all_s_elems_2)
+ mut1={}
+ mut2={}
+ count1 = {}
+ count2 = {}
+ """
+ if p_group_cols[0] == 7: #i.e. the option chosen is group-by unit(AG, GTC, etc)
+ uniq_elems_1 = get_unique_units(j.sort(lambda x, y: len(x)-len(y)))
+ """
+ if p_group_cols[0] == 6: #i.e. the option chosen is group-by repeat number.
+ uniq_elems_1 = get_binned_lists(uniq_elems_1,p_bin_size)
+ uniq_elems_2 = get_binned_lists(uniq_elems_2,p_bin_size)
+
+ if s_group_cols[0] == 6: #i.e. the option chosen is subgroup-by repeat number.
+ uniq_s_elems_1 = get_binned_lists(uniq_s_elems_1,s_bin_size)
+ uniq_s_elems_2 = get_binned_lists(uniq_s_elems_2,s_bin_size)
+
+ for pitem1 in uniq_elems_1:
+ repeats1 = []
+ repeats2 = []
+ thresholds = []
+ if s_group_cols[0] != -1: #Sub-group by feature is not None
+ for sitem1 in uniq_s_elems_1:
+ if type(sitem1) == type(''):
+ sitem1 = sitem1.strip()
+ for bline in blk_lines:
+ belems = bline.split('\t')
+ if type(pitem1) == list:
+ if p_group_cols[0] == 6:
+ belems[p_group_cols[0]] = int(belems[p_group_cols[0]])
+ if belems[p_group_cols[0]] in pitem1:
+ if belems[s_group_cols[0]]==sitem1:
+ repeats1.append(int(belems[6]))
+ repeats2.append(int(belems[13]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut1[str(pitem1)+'\t'+str(sitem1)]=mutabilityEstimator(repeats1,repeats2,thresholds)
+ if region == 'align':
+ count1[str(pitem1)+'\t'+str(sitem1)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count1["%s\t%s" %(pitem1,sitem1)]=sum(repeats1)
+ elif winspecies == 2:
+ count1["%s\t%s" %(pitem1,sitem1)]=sum(repeats2)
+ else:
+ if type(sitem1) == list:
+ if s_group_cols[0] == 6:
+ belems[s_group_cols[0]] = int(belems[s_group_cols[0]])
+ if belems[p_group_cols[0]]==pitem1 and belems[s_group_cols[0]] in sitem1:
+ repeats1.append(int(belems[6]))
+ repeats2.append(int(belems[13]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut1["%s\t%s" %(pitem1,sitem1)]=mutabilityEstimator(repeats1,repeats2,thresholds)
+ if region == 'align':
+ count1[str(pitem1)+'\t'+str(sitem1)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count1[str(pitem1)+'\t'+str(sitem1)]=sum(repeats1)
+ elif winspecies == 2:
+ count1[str(pitem1)+'\t'+str(sitem1)]=sum(repeats2)
+ else:
+ if belems[p_group_cols[0]]==pitem1 and belems[s_group_cols[0]]==sitem1:
+ repeats1.append(int(belems[6]))
+ repeats2.append(int(belems[13]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut1["%s\t%s" %(pitem1,sitem1)]=mutabilityEstimator(repeats1,repeats2,thresholds)
+ if region == 'align':
+ count1[str(pitem1)+'\t'+str(sitem1)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count1["%s\t%s" %(pitem1,sitem1)]=sum(repeats1)
+ elif winspecies == 2:
+ count1["%s\t%s" %(pitem1,sitem1)]=sum(repeats2)
+ else: #Sub-group by feature is None
+ for bline in blk_lines:
+ belems = bline.split('\t')
+ if type(pitem1) == list:
+ #print >>sys.stderr, "item: " + str(item1)
+ if p_group_cols[0] == 6:
+ belems[p_group_cols[0]] = int(belems[p_group_cols[0]])
+ if belems[p_group_cols[0]] in pitem1:
+ repeats1.append(int(belems[6]))
+ repeats2.append(int(belems[13]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ else:
+ if belems[p_group_cols[0]]==pitem1:
+ repeats1.append(int(belems[6]))
+ repeats2.append(int(belems[13]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut1["%s" %(pitem1)]=mutabilityEstimator(repeats1,repeats2,thresholds)
+ if region == 'align':
+ count1["%s" %(pitem1)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count1[str(pitem1)]=sum(repeats1)
+ elif winspecies == 2:
+ count1[str(pitem1)]=sum(repeats2)
+
+ for pitem2 in uniq_elems_2:
+ repeats1 = []
+ repeats2 = []
+ thresholds = []
+ if s_group_cols[0] != -1: #Sub-group by feature is not None
+ for sitem2 in uniq_s_elems_2:
+ if type(sitem2)==type(''):
+ sitem2 = sitem2.strip()
+ for bline in blk_lines:
+ belems = bline.split('\t')
+ if type(pitem2) == list:
+ if p_group_cols[0] == 6:
+ belems[p_group_cols[1]] = int(belems[p_group_cols[1]])
+ if belems[p_group_cols[1]] in pitem2 and belems[s_group_cols[1]]==sitem2:
+ repeats2.append(int(belems[13]))
+ repeats1.append(int(belems[6]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut2["%s\t%s" %(pitem2,sitem2)]=mutabilityEstimator(repeats2,repeats1,thresholds)
+ #count2[str(pitem2)+'\t'+str(sitem2)]=len(repeats2)
+ if region == 'align':
+ count2["%s\t%s" %(pitem2,sitem2)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats2)
+ elif winspecies == 2:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats1)
+ else:
+ if type(sitem2) == list:
+ if s_group_cols[0] == 6:
+ belems[s_group_cols[1]] = int(belems[s_group_cols[1]])
+ if belems[p_group_cols[1]]==pitem2 and belems[s_group_cols[1]] in sitem2:
+ repeats2.append(int(belems[13]))
+ repeats1.append(int(belems[6]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut2["%s\t%s" %(pitem2,sitem2)]=mutabilityEstimator(repeats2,repeats1,thresholds)
+ if region == 'align':
+ count2["%s\t%s" %(pitem2,sitem2)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats2)
+ elif winspecies == 2:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats1)
+ else:
+ if belems[p_group_cols[1]]==pitem2 and belems[s_group_cols[1]]==sitem2:
+ repeats1.append(int(belems[13]))
+ repeats2.append(int(belems[6]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut2["%s\t%s" %(pitem2,sitem2)]=mutabilityEstimator(repeats2,repeats1,thresholds)
+ if region == 'align':
+ count2["%s\t%s" %(pitem2,sitem2)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats2)
+ elif winspecies == 2:
+ count2["%s\t%s" %(pitem2,sitem2)]=len(repeats1)
+ else: #Sub-group by feature is None
+ for bline in blk_lines:
+ belems = bline.split('\t')
+ if type(pitem2) == list:
+ if p_group_cols[0] == 6:
+ belems[p_group_cols[1]] = int(belems[p_group_cols[1]])
+ if belems[p_group_cols[1]] in pitem2:
+ repeats2.append(int(belems[13]))
+ repeats1.append(int(belems[6]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ else:
+ if belems[p_group_cols[1]]==pitem2:
+ repeats2.append(int(belems[13]))
+ repeats1.append(int(belems[6]))
+ if belems[4] == 'mononucleotide':
+ thresholds.append(mono_threshold)
+ else:
+ thresholds.append(non_mono_threshold)
+ mut2["%s" %(pitem2)]=mutabilityEstimator(repeats2,repeats1,thresholds)
+ if region == 'align':
+ count2["%s" %(pitem2)]=min(sum(repeats1),sum(repeats2))
+ else:
+ if winspecies == 1:
+ count2["%s" %(pitem2)]=sum(repeats2)
+ elif winspecies == 2:
+ count2["%s" %(pitem2)]=sum(repeats1)
+ for key in mut1.keys():
+ if key in mut2.keys():
+ mut = (mut1[key][0]+mut2[key][0])/(mut1[key][1]+mut2[key][1])
+ count = count1[key]
+ del mut2[key]
+ else:
+ unit_found = False
+ if p_group_cols[0] == 7 or s_group_cols[0] == 7: #if it is Repeat Unit (AG, GCT etc.) check for reverse-complements too
+ if p_group_cols[0] == 7:
+ this,other = 0,1
+ else:
+ this,other = 1,0
+ groups1 = key.split('\t')
+ mutn = mut1[key][0]
+ mutd = mut1[key][1]
+ count = 0
+ for key2 in mut2.keys():
+ groups2 = key2.split('\t')
+ if groups1[other] == groups2[other]:
+ if groups1[this] in groups2[this]*2 or reverse_complement(groups1[this]) in groups2[this]*2:
+ #mut = (mut1[key][0]+mut2[key2][0])/(mut1[key][1]+mut2[key2][1])
+ mutn += mut2[key2][0]
+ mutd += mut2[key2][1]
+ count += int(count2[key2])
+ unit_found = True
+ del mut2[key2]
+ #break
+ if unit_found:
+ mut = mutn/mutd
+ else:
+ mut = mut1[key][0]/mut1[key][1]
+ count = count1[key]
+ mut = "%.2e" %(mut/num_generations)
+ if region == 'align':
+ print >>fout, str(blk) + '\t'+seq1 + '\t' + start1+ '\t'+end1+ '\t'+seq2 + '\t'+start2+ '\t'+end2+ '\t'+key.strip()+ '\t'+str(mut) + '\t'+ str(count)
+ elif region == 'win':
+ fout.write("%s\t%s\t%s\t%s\n" %(blk,key.strip(),mut,count))
+ fout.flush()
+ #print >>fout, blk + '\t'+key.strip()+ '\t'+str(mut)+ '\t'+ str(count)
+
+ #catch any remaining repeats, for instance if the orthologous position contained different repeat units
+ for remaining_key in mut2.keys():
+ mut = mut2[remaining_key][0]/mut2[remaining_key][1]
+ mut = "%.2e" %(mut/num_generations)
+ count = count2[remaining_key]
+ if region == 'align':
+ print >>fout, str(blk) + '\t'+seq1 + '\t' + start1+ '\t'+end1+ '\t'+seq2 + '\t'+start2+ '\t'+end2+ '\t'+remaining_key.strip()+ '\t'+str(mut)+ '\t'+ str(count)
+ elif region == 'win':
+ fout.write("%s\t%s\t%s\t%s\n" %(blk,remaining_key.strip(),mut,count))
+ fout.flush()
+ #print >>fout, blk + '\t'+remaining_key.strip()+ '\t'+str(mut)+ '\t'+ str(count)
+
+def counter(node, start, end, report_func):
+ if start <= node.start < end and start < node.end <= end:
+ report_func(node)
+ if node.right:
+ counter(node.right, start, end, report_func)
+ if node.left:
+ counter(node.left, start, end, report_func)
+ elif node.start < start and node.right:
+ counter(node.right, start, end, report_func)
+ elif node.start >= end and node.left and node.left.maxend > start:
+ counter(node.left, start, end, report_func)
+
+
+def main():
+ infile = sys.argv[1]
+
+ for i, line in enumerate( file ( infile )):
+ line = line.rstrip('\r\n')
+ if len( line )>0 and not line.startswith( '#' ):
+ elems = line.split( '\t' )
+ break
+ if i == 30:
+ break # Hopefully we'll never get here...
+
+ if len( elems ) != 15:
+ stop_err( "This tool only works on tabular data output by 'Extract Orthologous Microsatellites from pair-wise alignments' tool. The data in your input dataset is either missing or not formatted properly." )
+ global winspecies, speciesind
+ if region == 'win':
+ if dbkey_i in elems[1]:
+ winspecies = 1
+ speciesind = 1
+ elif dbkey_i in elems[8]:
+ winspecies = 2
+ speciesind = 8
+ else:
+ stop_err("The species build corresponding to your interval file is not present in the Microsatellite file.")
+
+ fin = open(infile, 'r')
+ skipped = 0
+ blk=0
+ win=0
+ linestr=""
+ ff=open("junkmabc","w")
+
+ if region == 'win':
+
+ """
+ sorted_infile = tempfile.NamedTemporaryFile()
+ if winspecies == 1:
+ cmdline = "sort -n -k 3"+" -o "+sorted_infile.name+" "+infile
+ elif winspecies == 2:
+ cmdline = "sort -n -k 10"+" -o "+sorted_infile.name+" "+infile
+ os.system(cmdline)
+ print >>ff, "Finished sorting"
+ """
+ msats = NiceReaderWrapper( fileinput.FileInput( infile ),
+ chrom_col = speciesind,
+ start_col = speciesind+1,
+ end_col = speciesind+2,
+ strand_col = -1,
+ fix_strand = True)
+ msatTree = quicksect.IntervalTree()
+ for item in msats:
+ #print >>sys.stderr, item
+ if type( item ) is GenomicInterval:
+ msatTree.insert( item, msats.linenum, item.fields )
+ """
+ result = []
+ msatTree.traverse(lambda node: result.append( node ))
+ for n in result:
+ print >>sys.stderr,n.other
+ print >>sys.stderr,msatTree.chroms
+ #sys.exit()
+ """
+ for iline in fint:
+ try:
+ iline = iline.rstrip('\r\n')
+ if not(iline) or iline == "":
+ continue
+ ielems = iline.strip("\r\n").split('\t')
+ ichr = ielems[chr_col_i]
+ istart = int(ielems[start_col_i])
+ iend = int(ielems[end_col_i])
+ isrc = "%s.%s" %(dbkey_i,ichr)
+ if isrc not in msatTree.chroms:
+ continue
+ result = []
+ root = msatTree.chroms[isrc] #root node for the chrom
+ counter(root, istart, iend, lambda node: result.append( node ))
+ if not(result):
+ continue
+ tmpfile1 = tempfile.NamedTemporaryFile('wb+')
+ for node in result:
+ tmpfile1.write("%s\n" % "\t".join( node.other ))
+
+ tmpfile1.seek(0)
+ output_writer(iline, tmpfile1.readlines())
+ except:
+ skipped+=1
+ if skipped:
+ print "Skipped %d intervals as invalid." %(skipped)
+ elif region == 'align':
+ if s_group_cols[0] != -1:
+ print >>fout, "#Window\tSpecies_1\tWindow_Start\tWindow_End\tSpecies_2\tGroupby_Feature\tSubGroupby_Feature\tMutability\tCount"
+ else:
+ print >>fout, "#Window\tSpecies_1\tWindow_Start\tWindow_End\tSpecies_2\tGroupby_Feature\tMutability\tCount"
+ prev_bnum = -1
+ try:
+ for line in fin:
+ line = line.strip("\r\n")
+ if not(line) or line == "":
+ continue
+ elems = line.split('\t')
+ try:
+ assert int(elems[0])
+ assert len(elems) == 15
+ except:
+ continue
+ new_bnum = int(elems[0])
+ if new_bnum != prev_bnum:
+ if prev_bnum != -1:
+ output_writer(prev_bnum, linestr.strip().replace('\r','\n').split('\n'))
+ linestr = line + "\n"
+ else:
+ linestr += line
+ linestr += "\n"
+ prev_bnum = new_bnum
+ output_writer(prev_bnum, linestr.strip().replace('\r','\n').split('\n'))
+ except Exception, ea:
+ print >>sys.stderr, ea
+ skipped += 1
+ if skipped:
+ print "Skipped %d lines as invalid." %(skipped)
+if __name__ == "__main__":
+ main()
\ No newline at end of file
diff -r 447c74d98fe5 -r ad3f61801a82 tools/regVariation/microsats_mutability.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/regVariation/microsats_mutability.xml Wed Sep 24 18:20:39 2008 -0400
@@ -0,0 +1,117 @@
+<tool id="microsats_mutability1" name="Estimate microsatellite mutability" version="1.0.0">
+ <description>by specified attributes</description>
+ <command interpreter="python">
+ microsats_mutability.py
+ $input1
+ $out_file1
+ ${pri_condition.primary_group}
+ #if $pri_condition.primary_group == "6":
+ ${pri_condition.binsize} ${pri_condition.subgroup} -1
+ #else:
+ 0 ${pri_condition.sub_condition.subgroup}
+ #if $pri_condition.sub_condition.subgroup == "6":
+ ${pri_condition.sub_condition.s_binsize}
+ #else:
+ -1
+ #end if
+ #end if
+ $gens
+ ${region.type}
+ #if $region.type == "win":
+ ${region.input2} $input2.dbkey $input2.metadata.chromCol,$input2.metadata.startCol,$input2.metadata.endCol,$input2.metadata.strandCol
+ #else:
+ "None"
+ #end if
+ </command>
+ <inputs>
+ <page>
+ <param name="input1" type="data" format="tabular" label="Select dataset containing Orthologous microsatellites"/>
+ <conditional name="region">
+ <param name="type" type="select" label="Estimate rates corresponding to" multiple="false">
+ <option value="align">Alignment block</option>
+ <option value="win">Intervals in your history</option>
+ </param>
+ <when value="win">
+ <param format="interval" name="input2" type="data" label="Choose intervals">
+ <validator type="unspecified_build" />
+ </param>
+ </when>
+ <when value="align" />
+ </conditional>
+ <param name="gens" size="10" type="integer" value="1" label="Number of generations between the two species in input file"/>
+ <conditional name="pri_condition">
+ <param name="primary_group" type="select" label="Group by" multiple="false">
+ <option value="4">Motif type (mono/di/tri etc.)</option>
+ <option value="7">Repeat Unit (AG, GCT etc.)</option>
+ <option value="6">Repeat Number </option>
+ </param>
+ <when value="6">
+ <param name="binsize" size="10" type="integer" value="1" label="Bin-size" help="Bin-size denotes the number of repeat numbers to be considered as a group. Bin-size of 5 will group every 5 consecutive repeat numbers into a group."/>
+ <param name="subgroup" type="select" label="Sub-group by" multiple="false">
+ <option value="-1">None</option>
+ <option value="4">Motif type (mono/di/tri etc.)</option>
+ <option value="7">Repeat Unit (AG, GCT etc.)</option>
+ </param>
+ </when>
+ <when value="7">
+ <conditional name="sub_condition">
+ <param name="subgroup" type="select" label="Sub-group by" multiple="false">
+ <option value="-1">None</option>
+ <option value="4">Motif type (mono/di/tri etc.)</option>
+ <option value="6">Repeat Number </option>
+ </param>
+ <when value="-1"></when>
+ <when value="4"></when>
+ <when value="6">
+ <param name="s_binsize" size="10" type="integer" value="1" label="Bin size" help="Bin-size denotes the number of repeat numbers to be considered as a group. Bin-size of 5 will group every 5 consecutive repeat numbers into a group."/>
+ </when>
+ </conditional>
+ </when>
+ <when value="4">
+ <conditional name="sub_condition">
+ <param name="subgroup" type="select" label="Sub-group by" multiple="false">
+ <option value="-1">None</option>
+ <option value="7">Repeat Unit (AG, GCT etc.)</option>
+ <option value="6">Repeat Number </option>
+ </param>
+ <when value="-1"></when>
+ <when value="7"></when>
+ <when value="6">
+ <param name="s_binsize" size="10" type="integer" value="1" label="Bin size" help="Bin-size denotes the number of repeat numbers to be considered as a group. Bin-size of 5 will group every 5 consecutive repeat numbers into a group."/>
+ </when>
+ </conditional>
+ </when>
+ </conditional>
+ </page>
+ </inputs>
+ <outputs>
+ <data format="tabular" name="out_file1" />
+ </outputs>
+ <!--
+ <tests>
+ <test>
+ <param name="input1" value="ortho_ms.tab"/>
+ <param name="type" value="align"/>
+ <param name="gens" value="1"/>
+ <param name="primary_group" value="4"/>
+ <param name="sub_condition|subgroup" value="7"/>
+ <output name="out_file1" file="ortho_ms_mut.tab"/>
+ </test>
+ </tests>
+ -->
+<help>
+.. class:: infomark
+
+**What it does**
+
+This tool computes microsatellite mutability for the orthologous microsatellites fetched from 'Extract Orthologous Microsatellites from pair-wise alignments' tool.
+
+-----
+
+.. class:: warningmark
+
+**Note**
+
+The user selected group and subgroup by features, the computed mutability and the count of the number of repeats used to compute that mutability are added as columns to the output.
+</help>
+</tool>
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