commit/galaxy-central: Dave Bouvier: Clean up migration stage functional test script, add check strings for stage 8.
by commits-noreply＠bitbucket.org 03 Oct '13
by commits-noreply＠bitbucket.org 03 Oct '13
03 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/54673424aa68/
Changeset: 54673424aa68
User: Dave Bouvier
Date: 2013-10-03 16:15:42
Summary: Clean up migration stage functional test script, add check strings for stage 8.
Affected #: 1 file
diff -r a3c0180445385eb708e03304769599a8c9cc2760 -r 54673424aa68129d1bae517db268d571feb73fae test/tool_shed/functional/test_1400_review_migration_stages.py
--- a/test/tool_shed/functional/test_1400_review_migration_stages.py
+++ b/test/tool_shed/functional/test_1400_review_migration_stages.py
@@ -20,14 +20,26 @@
def test_0005_load_migration_stages_page( self ):
'''Load the migration page and check for the appropriate migration stages.'''
- stages = [
- 'emboss_5', 'emboss_datatypes', 'emboss', '5.0.0', '0002_tools.sh',
- 'freebayes', '0.9.4_9696d0ce8a962f7bb61c4791be5ce44312b81cf8', 'samtools', '0.1.18', 'FreeBayes requires g++',
- 'ncurses', 'zlib', '0003_tools.sh',
- 'ncbi_blast_plus', 'blast_datatypes', 'blast+', '2.2.26+', 'blast.ncbi.nlm.nih.gov', 'NCBI BLAST+ tools', '0004_tools.sh',
- 'bwa_wrappers', '0.5.9', 'zlib and libpthread', 'Map with BWA for Illumina', '0005_tools.sh',
- 'picard', '1.56.0', 'FASTQ to BAM', '0006_tools.sh',
- 'lastz', '1.02.00', 'bowtie', '0.12.7', 'Map with Bowtie for Illumina', 'Bowtie requires libpthread', '0007_tools.sh'
- ]
+ stages = []
+ migration_message_strings = [ 'The Emboss 5.0.0 tools have been eliminated',
+ 'The freebayes tool has been eliminated',
+ 'The NCBI BLAST+ tools',
+ 'The tools "Map with BWA for Illumina"',
+ 'FASTQ to BAM, SAM to FASTQ, BAM ',
+ 'Map with Bowtie for Illumina, ',
+ 'BAM-to-SAM converts BAM format' ]
+ migrated_repository_names = [ 'emboss_5', 'emboss_datatypes', 'freebayes', 'ncbi_blast_plus',
+ 'blast_datatypes', 'bwa_wrappers', 'picard', 'lastz',
+ 'lastz_paired_reads', 'bowtie_color_wrappers', 'bowtie_wrappers',
+ 'xy_plot', 'bam_to_sam' ]
+ migrated_tool_dependencies = [ 'emboss', '5.0.0', 'freebayes', '0.9.4_9696d0ce8a962f7bb61c4791be5ce44312b81cf8',
+ 'samtools', '0.1.18', 'blast+', '2.2.26+', 'bwa', '0.5.9', 'picard', '1.56.0',
+ 'lastz', '1.02.00', 'bowtie', '0.12.7', 'FreeBayes requires g++', 'ncurses', 'zlib',
+ 'zlib and libpthread', 'blast.ncbi.nlm.nih.gov', 'fastx_toolkit', '0.0.13',
+ 'samtools', '0.1.16', 'cufflinks', '2.1.1', 'R', '2.11.0' ]
+ migration_scripts = [ '0002_tools.sh', '0003_tools.sh', '0004_tools.sh', '0005_tools.sh', '0006_tools.sh',
+ '0007_tools.sh', '0008_tools.sh' ]
+ stages.extend( migration_scripts + migrated_tool_dependencies + migrated_repository_names )
+ stages.extend( migration_message_strings )
self.load_galaxy_tool_migrations_page( strings_displayed=stages )
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: greg: Eliminate the problematic "Select one" option from select fields.
by commits-noreply＠bitbucket.org 03 Oct '13
by commits-noreply＠bitbucket.org 03 Oct '13
03 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/a3c018044538/
Changeset: a3c018044538
User: greg
Date: 2013-10-02 22:44:48
Summary: Eliminate the problematic "Select one" option from select fields.
Affected #: 1 file
diff -r e262ddfe44c34200bac86dfab64c7acbdc5c54a3 -r a3c0180445385eb708e03304769599a8c9cc2760 lib/galaxy/web/form_builder.py
--- a/lib/galaxy/web/form_builder.py
+++ b/lib/galaxy/web/form_builder.py
@@ -756,13 +756,6 @@
refresh_on_change=refresh_on_change,
refresh_on_change_values=refresh_on_change_values,
size=size )
- if display is None and initial_value == 'none':
- # Only insert an initial "Select one" option if we are not displaying check boxes
- # or radio buttons and we have not received an initial_value other than 'none'.
- if selected_value == initial_value:
- select_field.add_option( 'Select one', initial_value, selected=True )
- else:
- select_field.add_option( 'Select one', initial_value )
for obj in objs:
if label_attr == 'self':
# Each obj is a string
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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03 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/e262ddfe44c3/
Changeset: e262ddfe44c3
User: guerler
Date: 2013-10-02 19:34:52
Summary: Fix links in masterhead
Affected #: 1 file
diff -r 99e18f8868470f48a6a5d91070019d9bfc801f7e -r e262ddfe44c34200bac86dfab64c7acbdc5c54a3 templates/webapps/galaxy/galaxy.masthead.mako
--- a/templates/webapps/galaxy/galaxy.masthead.mako
+++ b/templates/webapps/galaxy/galaxy.masthead.mako
@@ -51,7 +51,7 @@
<ul class="nav navbar-nav" border="0" cellspacing="0">
- <%def name="tab( id, display, href, target='_parent', visible=True, extra_class='', menu_options=None )">
+ <%def name="tab( id, display, href, onclick=False, target='_parent', visible=True, extra_class='', menu_options=None )">
## Create a tab at the top of the panels. menu_options is a list of 2-elements lists of [name, link]
## that are options in the menu.
@@ -61,8 +61,6 @@
extra = ""
if extra_class:
cls += " " + extra_class
- ##if self.active_view == id:
- ## cls += " active"
if menu_options:
cls += " dropdown"
a_cls += " dropdown-toggle"
@@ -88,7 +86,11 @@
${menu_item[0]}
%elif len ( menu_item ) == 2:
<% name, link = menu_item %>
- <a href="${link}">${name}</a>
+ %if onclick:
+ <a href="${link}" onclick="Galaxy.frame_manager.frame_new({title: '${name}', type: 'url', content: '${link}'}); return false;">${name}</a>
+ %else:
+ <a href="${link}">${name}</a>
+ %endif
%else:
<% name, link, target = menu_item %><a target="${target}" href="${link}">${name}</a>
@@ -105,7 +107,7 @@
${tab( "analysis", _("Analyze Data"), h.url_for( controller='/root', action='index' ) )}
## Workflow tab.
- ${tab( "workflow", _("Workflow"), "javascript:Galaxy.frame_manager.frame_new({title: 'Workflow', type: 'url', content: '" + h.url_for( controller='/workflow', action='index' ) + "'});")}
+ ${tab( "workflow", _("Workflow"), h.url_for( controller='/workflow', action='index' ) )}
## 'Shared Items' or Libraries tab.
<%
@@ -135,10 +137,10 @@
## Visualization menu.
<%
menu_options = [
- [_('New Track Browser'), "javascript:Galaxy.frame_manager.frame_new({title: 'Trackster', type: 'url', content: '" + h.url_for( controller='/visualization', action='trackster' ) + "'});"],
- [_('Saved Visualizations'), "javascript:Galaxy.frame_manager.frame_new({ type: 'url', content : '" + h.url_for( controller='/visualization', action='list' ) + "'});" ]
+ [_('New Track Browser'), h.url_for( controller='/visualization', action='trackster' )],
+ [_('Saved Visualizations'), h.url_for( controller='/visualization', action='list' )]
]
- tab( "visualization", _("Visualization"), "javascript:Galaxy.frame_manager.frame_new({title: 'Trackster', type: 'url', content: '" + h.url_for( controller='/visualization', action='list' ) + "'});", menu_options=menu_options )
+ tab( "visualization", _("Visualization"), h.url_for( controller='/visualization', action='list' ), menu_options=menu_options, onclick=True )
%>
## Cloud menu.
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: guerler: Fix links in masterhead, continue integration of new modal
by commits-noreply＠bitbucket.org 03 Oct '13
by commits-noreply＠bitbucket.org 03 Oct '13
03 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/99e18f886847/
Changeset: 99e18f886847
User: guerler
Date: 2013-10-02 19:23:22
Summary: Fix links in masterhead, continue integration of new modal
Affected #: 8 files
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e static/scripts/mvc/data.js
--- a/static/scripts/mvc/data.js
+++ b/static/scripts/mvc/data.js
@@ -416,49 +416,54 @@
error: function() { alert( ( "Could not add this dataset to browser" ) + '.' ); },
success: function(table_html) {
var parent = window.parent;
+ parent.Galaxy.modal.show({
+ title : "View Data in a New or Saved Visualization",
+ buttons :{
+ "Cancel": function(){
+ parent.Galaxy.modal.hide();
+ },
+ "View in saved visualization": function(){
+ // Show new modal with saved visualizations.
+ parent.Galaxy.modal.show(
+ {
+ title: "Add Data to Saved Visualization",
+ body: table_html,
+ buttons :{
+ "Cancel": function(){
+ parent.Galaxy.modal.hide();
+ },
+ "Add to visualization": function(){
+ $(parent.document).find('input[name=id]:checked').each(function(){
+ // hide
+ parent.Galaxy.modal.hide();
+
+ var vis_id = $(this).val();
+ dataset_params.id = vis_id;
+
+ // add widget
+ parent.Galaxy.frame_manager.frame_new({
+ title : "Trackster",
+ type : "url",
+ content : vis_url + "/trackster?" + $.param(dataset_params)
+ });
+ });
+ }
+ }
+ });
+ },
+ "View in new visualization": function(){
+ // hide
+ parent.Galaxy.modal.hide();
+
+ var url = vis_url + "/trackster?" + $.param(dataset_params);
- parent.show_modal( ( "View Data in a New or Saved Visualization" ), "", {
- "Cancel": function() {
- parent.hide_modal();
- },
- "View in saved visualization": function() {
- // Show new modal with saved visualizations.
- parent.show_modal( ( "Add Data to Saved Visualization" ), table_html, {
- "Cancel": function() {
- parent.hide_modal();
- },
- "Add to visualization": function() {
- $(parent.document).find('input[name=id]:checked').each(function() {
- var vis_id = $(this).val();
- dataset_params.id = vis_id;
-
- // add widget
- parent.Galaxy.frame_manager.frame_new(
- {
- title : "Trackster",
- type : "url",
- content : vis_url + "/trackster?" + $.param(dataset_params)
- });
-
- // hide
- parent.hide_modal();
- });
- }
- });
- },
- "View in new visualization": function() {
- var url = vis_url + "/trackster?" + $.param(dataset_params);
-
- // add widget
- parent.Galaxy.frame_manager.frame_new(
- {
- title : "Trackster",
- type : "url",
- content : url
- });
-
- // hide
- parent.hide_modal();
+ // add widget
+ parent.Galaxy.frame_manager.frame_new({
+ title : "Trackster",
+ type : "url",
+ content : url
+ });
+ }
}
});
}
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e static/scripts/mvc/dataset/hda-edit.js
--- a/static/scripts/mvc/dataset/hda-edit.js
+++ b/static/scripts/mvc/dataset/hda-edit.js
@@ -635,67 +635,77 @@
* @returns function that displays modal, loads trackster
*/
//TODO: should be imported from trackster.js
-function create_trackster_action_fn(vis_url, dataset_params, dbkey) {
- return function() {
- var listTracksParams = {};
- if (dbkey){
- // list_tracks seems to use 'f-dbkey' (??)
- listTracksParams[ 'f-dbkey' ] = dbkey;
- }
- $.ajax({
- url: vis_url + '/list_tracks?' + $.param( listTracksParams ),
- dataType: "html",
- error: function() { alert( _l( "Could not add this dataset to browser" ) + '.' ); },
- success: function(table_html) {
- var parent = window.parent;
+//TODO: This function is redundant and also exists in data.js
+ // create action
+ function create_trackster_action_fn (vis_url, dataset_params, dbkey) {
+ return function() {
+ var listTracksParams = {};
+ if (dbkey){
+ // list_tracks seems to use 'f-dbkey' (??)
+ listTracksParams[ 'f-dbkey' ] = dbkey;
+ }
+ $.ajax({
+ url: vis_url + '/list_tracks?' + $.param( listTracksParams ),
+ dataType: "html",
+ error: function() { alert( ( "Could not add this dataset to browser" ) + '.' ); },
+ success: function(table_html) {
+ var parent = window.parent;
+ parent.Galaxy.modal.show({
+ title : "View Data in a New or Saved Visualization",
+ buttons :{
+ "Cancel": function(){
+ parent.Galaxy.modal.hide();
+ },
+ "View in saved visualization": function(){
+ // Show new modal with saved visualizations.
+ parent.Galaxy.modal.show(
+ {
+ title: "Add Data to Saved Visualization",
+ body: table_html,
+ buttons :{
+ "Cancel": function(){
+ parent.Galaxy.modal.hide();
+ },
+ "Add to visualization": function(){
+ $(parent.document).find('input[name=id]:checked').each(function(){
+ // hide
+ parent.Galaxy.modal.hide();
+
+ var vis_id = $(this).val();
+ dataset_params.id = vis_id;
+
+ // add widget
+ parent.Galaxy.frame_manager.frame_new({
+ title : "Trackster",
+ type : "url",
+ content : vis_url + "/trackster?" + $.param(dataset_params)
+ });
+ });
+ }
+ }
+ });
+ },
+ "View in new visualization": function(){
+ // hide
+ parent.Galaxy.modal.hide();
+
+ var url = vis_url + "/trackster?" + $.param(dataset_params);
- parent.show_modal( _l( "View Data in a New or Saved Visualization" ), "", {
- "Cancel": function() {
- parent.hide_modal();
- },
- "View in saved visualization": function() {
- // Show new modal with saved visualizations.
- parent.show_modal( _l( "Add Data to Saved Visualization" ), table_html, {
- "Cancel": function() {
- parent.hide_modal();
- },
- "Add to visualization": function() {
- $(parent.document).find('input[name=id]:checked').each(function() {
- var vis_id = $(this).val();
- dataset_params.id = vis_id;
-
- // hide modal
- parent.hide_modal();
-
- // add widget
- Galaxy.frame_manager.frame_new(
- {
- title : "Trackster",
- type : "url",
- content : vis_url + "/trackster?" + $.param(dataset_params)
- });
+ // add widget
+ parent.Galaxy.frame_manager.frame_new({
+ title : "Trackster",
+ type : "url",
+ content : url
});
}
- });
- },
- "View in new visualization": function() {
- // hide modal
- parent.hide_modal();
+ }
+ });
+ }
+ });
+ return false;
+ };
+ }
- // add widget
- Galaxy.frame_manager.frame_new(
- {
- title : "Trackster",
- type : "url",
- content : vis_url + "/trackster?" + $.param(dataset_params)
- });
- }
- });
- }
- });
- return false;
- };
-}
//==============================================================================
//return {
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e static/scripts/utils/config.js
--- a/static/scripts/utils/config.js
+++ b/static/scripts/utils/config.js
@@ -245,9 +245,13 @@
if (this.$el.children().length === 0) {
this.render();
}
- show_modal("Configure", drawable.config.build_form(), {
- "Cancel": cancel_fn,
- "OK": ok_fn
+ Galaxy.modal.show({
+ title: "Configure",
+ body: drawable.config.build_form(),
+ buttons: {
+ "Cancel": cancel_fn,
+ "OK": ok_fn
+ }
});
},
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e static/scripts/viz/trackster/filters.js
--- a/static/scripts/viz/trackster/filters.js
+++ b/static/scripts/viz/trackster/filters.js
@@ -596,15 +596,19 @@
$.getJSON(run_tool_url, url_params, function(response) {
if (response.error) {
// General error.
- show_modal("Filter Dataset",
- "Error running tool " + tool_id,
- { "Close" : hide_modal } );
+ Galaxy.modal.show({
+ title: "Filter Dataset",
+ body : "Error running tool " + tool_id,
+ buttons : { "Close" : Galaxy.modal.hide() }
+ });
}
else if (filters.length === 0) {
// No more filters to run.
- show_modal("Filtering Dataset",
- "Filter(s) are running on the complete dataset. Outputs are in dataset's history.",
- { "Close" : hide_modal } );
+ Galaxy.modal.show({
+ title: "Filtering Dataset",
+ body: "Filter(s) are running on the complete dataset. Outputs are in dataset's history.",
+ buttons: { "Close" : Galaxy.modal.hide() }
+ });
}
else {
// More filters to run.
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e static/scripts/viz/visualization.js
--- a/static/scripts/viz/visualization.js
+++ b/static/scripts/viz/visualization.js
@@ -20,7 +20,47 @@
data: filters,
error: function() { alert( "Grid failed" ); },
success: function(table_html) {
- Galaxy.modal.show({
+ show_modal(
+ "Select datasets for new tracks",
+ table_html,
+ {
+ "Cancel": function() {
+ hide_modal();
+ },
+ "Add": function() {
+ var requests = [];
+ $('input[name=id]:checked,input[name=ldda_ids]:checked').each(function() {
+ var data = {
+ data_type: 'track_config',
+ 'hda_ldda': 'hda'
+ },
+ id = $(this).val();
+ if ($(this).attr("name") !== "id") {
+ data.hda_ldda = 'ldda';
+ }
+ requests[requests.length] = $.ajax({
+ url: add_track_async_url + "/" + id,
+ data: data,
+ dataType: "json"
+ });
+ });
+ // To preserve order, wait until there are definitions for all tracks and then add
+ // them sequentially.
+ $.when.apply($, requests).then(function() {
+ // jQuery always returns an Array for arguments, so need to look at first element
+ // to determine whether multiple requests were made and consequently how to
+ // map arguments to track definitions.
+ var track_defs = (arguments[0] instanceof Array ?
+ $.map(arguments, function(arg) { return arg[0]; }) :
+ [ arguments[0] ]
+ );
+ success_fn(track_defs);
+ });
+ hide_modal();
+ }
+ }
+ );
+ /*Galaxy.modal.show({
title : "Select datasets for new tracks",
body : table_html,
buttons :
@@ -60,7 +100,7 @@
Galaxy.modal.hide();
}
}
- });
+ });*/
}
});
};
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e templates/base/base_panels.mako
--- a/templates/base/base_panels.mako
+++ b/templates/base/base_panels.mako
@@ -102,10 +102,11 @@
});
## load galaxy js-modules
- require(['galaxy.master', 'galaxy.frame', 'galaxy.upload'], function(master, frame, upload)
+ require(['galaxy.master', 'galaxy.frame', 'galaxy.modal', 'galaxy.upload'], function(master, frame, modal, upload)
{
Galaxy.master = new master.GalaxyMaster();
Galaxy.frame_manager = new frame.GalaxyFrameManager();
+ Galaxy.modal = new modal.GalaxyModal();
##Galaxy.upload = new upload.GalaxyUpload();
});
</script>
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e templates/webapps/galaxy/base_panels.mako
--- a/templates/webapps/galaxy/base_panels.mako
+++ b/templates/webapps/galaxy/base_panels.mako
@@ -63,7 +63,7 @@
<ul class="nav navbar-nav" border="0" cellspacing="0">
- <%def name="tab( id, display, href, target='_parent', visible=True, extra_class='', menu_options=None )">
+ <%def name="tab( id, display, href, onclick=False, target='_parent', visible=True, extra_class='', menu_options=None )">
## Create a tab at the top of the panels. menu_options is a list of 2-elements lists of [name, link]
## that are options in the menu.
@@ -100,7 +100,11 @@
${menu_item[0]}
%elif len ( menu_item ) == 2:
<% name, link = menu_item %>
- <a href="${link}">${name}</a>
+ %if onclick:
+ <a href="${link}" onclick="Galaxy.frame_manager.frame_new({title: '${name}', type: 'url', content: '${link}'}); return false;">${name}</a>
+ %else:
+ <a href="${link}">${name}</a>
+ %endif
%else:
<% name, link, target = menu_item %><a target="${target}" href="${link}">${name}</a>
@@ -117,7 +121,7 @@
${tab( "analysis", _("Analyze Data"), h.url_for( controller='/root', action='index' ) )}
## Workflow tab.
- ${tab( "workflow", _("Workflow"), "javascript:Galaxy.frame_manager.frame_new({title: 'Workflow', type: 'url', content: '" + h.url_for( controller='/workflow', action='index' ) + "'});")}
+ ${tab( "workflow", _("Workflow"), h.url_for( controller='/workflow', action='index' ) )}
## 'Shared Items' or Libraries tab.
<%
@@ -147,10 +151,10 @@
## Visualization menu.
<%
menu_options = [
- [_('New Track Browser'), "javascript:Galaxy.frame_manager.frame_new({title: 'Trackster', type: 'url', content: '" + h.url_for( controller='/visualization', action='trackster' ) + "'});"],
- [_('Saved Visualizations'), "javascript:Galaxy.frame_manager.frame_new({ type: 'url', content : '" + h.url_for( controller='/visualization', action='list' ) + "'});" ]
+ [_('New Track Browser'), h.url_for( controller='/visualization', action='trackster' )],
+ [_('Saved Visualizations'), h.url_for( controller='/visualization', action='list' )]
]
- tab( "visualization", _("Visualization"), "javascript:Galaxy.frame_manager.frame_new({title: 'Trackster', type: 'url', content: '" + h.url_for( controller='/visualization', action='list' ) + "'});", menu_options=menu_options )
+ tab( "visualization", _("Visualization"), h.url_for( controller='/visualization', action='list' ), menu_options=menu_options, onclick=True )
%>
## Cloud menu.
diff -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e -r 99e18f8868470f48a6a5d91070019d9bfc801f7e templates/webapps/galaxy/galaxy.panels.mako
--- a/templates/webapps/galaxy/galaxy.panels.mako
+++ b/templates/webapps/galaxy/galaxy.panels.mako
@@ -152,6 +152,38 @@
</script></%def>
+<%def name="overlay( title='', content='', visible=False )">
+ <%def name="title()"></%def>
+ <%def name="content()"></%def>
+
+ <%
+ if visible:
+ display = "style='display: block;'"
+ overlay_class = "in"
+ else:
+ display = "style='display: none;'"
+ overlay_class = ""
+ %>
+
+ <div id="top-modal" class="modal fade ${overlay_class}" ${display}>
+ <div id="top-modal-backdrop" class="modal-backdrop fade ${overlay_class}" style="z-index: -1"></div>
+ <div id="top-modal-dialog" class="modal-dialog">
+ <div class="modal-content">
+ <div class="modal-header">
+ <button type='button' class='close' style="display: none;">×</button>
+ <h4 class='title'>${title}</h4>
+ </div>
+ <div class="modal-body">${content}</div>
+ <div class="modal-footer">
+ <div class="buttons" style="float: right;"></div>
+ <div class="extra_buttons" style=""></div>
+ <div style="clear: both;"></div>
+ </div>
+ </div>
+ </div>
+ </div>
+</%def>
+
## document
<html><head>
@@ -182,7 +214,7 @@
%if self.galaxy_config['message_box']:
<div id="messagebox" class="panel-message"></div>
%endif
-
+ ${self.overlay()}
## left panel
%if self.galaxy_config['left_panel']:
<div id="left">
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: martenson: activation config settings made better
by commits-noreply＠bitbucket.org 02 Oct '13
by commits-noreply＠bitbucket.org 02 Oct '13
02 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/0fc6c5554877/
Changeset: 0fc6c5554877
User: martenson
Date: 2013-10-02 15:39:40
Summary: activation config settings made better
Affected #: 3 files
diff -r 0026e8e49df4273dc9bebcf3475e1873e5e808f3 -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e lib/galaxy/config.py
--- a/lib/galaxy/config.py
+++ b/lib/galaxy/config.py
@@ -132,7 +132,7 @@
self.admin_users = kwargs.get( "admin_users", "" )
self.mailing_join_addr = kwargs.get('mailing_join_addr',"galaxy-announce-join(a)bx.psu.edu")
self.error_email_to = kwargs.get( 'error_email_to', None )
- self.admin_email = kwargs.get( 'admin_email', None )
+ self.activation_email = kwargs.get( 'activation_email', None )
self.user_activation_on = kwargs.get( 'user_activation_on', None )
self.activation_grace_period = kwargs.get( 'activation_grace_period', None )
self.inactivity_box_content = kwargs.get( 'inactivity_box_content', None )
@@ -143,10 +143,10 @@
if self.blacklist_location is not None:
self.blacklist_file = resolve_path( kwargs.get( 'blacklist_file', None ), self.root )
try:
- with open(self.blacklist_file) as blacklist:
- self.blacklist_content = [ line.rstrip() for line in blacklist.readlines() ]
+ with open( self.blacklist_file ) as blacklist:
+ self.blacklist_content = [ line.rstrip() for line in blacklist.readlines() ]
except IOError:
- print ( "CONFIGURATION ERROR: Can't open supplied blacklist file from path: " + str( self.blacklist_file ) )
+ print ( "CONFIGURATION ERROR: Can't open supplied blacklist file from path: " + str( self.blacklist_file ) )
self.smtp_server = kwargs.get( 'smtp_server', None )
self.smtp_username = kwargs.get( 'smtp_username', None )
self.smtp_password = kwargs.get( 'smtp_password', None )
diff -r 0026e8e49df4273dc9bebcf3475e1873e5e808f3 -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e lib/galaxy/webapps/galaxy/controllers/user.py
--- a/lib/galaxy/webapps/galaxy/controllers/user.py
+++ b/lib/galaxy/webapps/galaxy/controllers/user.py
@@ -491,12 +491,12 @@
message = "No such user (please note that login is case sensitive)"
elif user.deleted:
message = "This account has been marked deleted, contact your local Galaxy administrator to restore the account."
- if trans.app.config.admin_email is not None:
- message += 'Contact: %s' % trans.app.config.admin_email
+ if trans.app.config.error_email_to is not None:
+ message += ' Contact: %s' % trans.app.config.error_email_to
elif user.external:
message = "This account was created for use with an external authentication method, contact your local Galaxy administrator to activate it."
- if trans.app.config.admin_email is not None:
- message += 'Contact: %s' % trans.app.config.admin_email
+ if trans.app.config.error_email_to is not None:
+ message += ' Contact: %s' % trans.app.config.error_email_to
elif not user.check_password( password ):
message = "Invalid password"
elif trans.app.config.user_activation_on and not user.active: # activation is ON and the user is INACTIVE
@@ -536,8 +536,8 @@
message = 'This account has not been activated yet. The activation link has been sent again. Please check your email address %s.<br>' % email
else:
message = 'This account has not been activated yet but we are unable to send the activation link. Please contact your local Galaxy administrator.'
- if trans.app.config.admin_email is not None:
- message += 'Contact: %s' % trans.app.config.admin_email
+ if trans.app.config.error_email_to is not None:
+ message += ' Contact: %s' % trans.app.config.error_email_to
return message
def is_outside_grace_period ( self, trans, create_time ):
@@ -591,8 +591,8 @@
is_admin = cntrller == 'admin' and trans.user_is_admin
if not trans.app.config.allow_user_creation and not trans.user_is_admin():
message = 'User registration is disabled. Please contact your local Galaxy administrator for an account.'
- if trans.app.config.admin_email is not None:
- message += 'Contact: %s' % trans.app.config.admin_email
+ if trans.app.config.error_email_to is not None:
+ message += ' Contact: %s' % trans.app.config.error_email_to
status = 'error'
else:
if not refresh_frames:
@@ -733,8 +733,8 @@
success = True
else:
message = 'Unable to send activation email, please contact your local Galaxy administrator.'
- if trans.app.config.admin_email is not None:
- message += 'Contact: %s' % trans.app.config.admin_email
+ if trans.app.config.error_email_to is not None:
+ message += ' Contact: %s' % trans.app.config.error_email_to
success = False
else: # User activation is OFF, proceed without sending the activation email.
message = 'Now logged in as %s.<br><a target="_top" href="%s">Return to the home page.</a>' % ( user.email, url_for( '/' ) )
@@ -752,7 +752,7 @@
"Activation link: %s \n\n"
"Your Galaxy Team" % ( email, activation_link ))
to = email
- frm = trans.app.config.admin_email
+ frm = trans.app.config.activation_email
subject = 'How to activate your Galaxy account'
try:
util.send_mail( frm, to, subject, body, trans.app.config )
diff -r 0026e8e49df4273dc9bebcf3475e1873e5e808f3 -r 0fc6c5554877c4389fc074cdfac60fdc12ebcb6e universe_wsgi.ini.sample
--- a/universe_wsgi.ini.sample
+++ b/universe_wsgi.ini.sample
@@ -269,11 +269,11 @@
# Datasets in an error state include a link to report the error. Those reports
# will be sent to this address. Error reports are disabled if no address is set.
+# Also this email is shown as a contact to user in case of Galaxy misconfiguration and other events user may encounter.
#error_email_to = None
-# Administrator's email is shown to user in case of Galaxy misconfiguration or a generic error.
-# It is also used as a sender for the account activation mail.
-#admin_email = None
+# Activation email is used as a sender ('from' field) for the account activation mail.
+#activation_email = None
# E-mail domains blacklist is used for filtering out users that are using disposable email address
# during the registration. If their address domain matches any domain in the BL they are refused the registration.
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: greg: Handle errors when attempting to set metadata on a tool shed repository that contains a file with a .ga extension but turns out to not be a valid exported Galaxy workflow.
by commits-noreply＠bitbucket.org 02 Oct '13
by commits-noreply＠bitbucket.org 02 Oct '13
02 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/0026e8e49df4/
Changeset: 0026e8e49df4
User: greg
Date: 2013-10-02 15:17:52
Summary: Handle errors when attempting to set metadata on a tool shed repository that contains a file with a .ga extension but turns out to not be a valid exported Galaxy workflow.
Affected #: 1 file
diff -r e416f8c710b63d7fc9f682539929e9823c26f041 -r 0026e8e49df4273dc9bebcf3475e1873e5e808f3 lib/tool_shed/util/metadata_util.py
--- a/lib/tool_shed/util/metadata_util.py
+++ b/lib/tool_shed/util/metadata_util.py
@@ -710,8 +710,16 @@
fp = open( relative_path, 'rb' )
workflow_text = fp.read()
fp.close()
- exported_workflow_dict = json.from_json_string( workflow_text )
- if 'a_galaxy_workflow' in exported_workflow_dict and exported_workflow_dict[ 'a_galaxy_workflow' ] == 'true':
+ if workflow_text:
+ valid_exported_galaxy_workflow = True
+ try:
+ exported_workflow_dict = json.from_json_string( workflow_text )
+ except Exception, e:
+ log.exception( "Skipping file %s since it does not seem to be a valid exported Galaxy workflow: %s" \
+ % str( relative_path ), str( e ) )
+ valid_exported_galaxy_workflow = False
+ if valid_exported_galaxy_workflow and \
+ 'a_galaxy_workflow' in exported_workflow_dict and exported_workflow_dict[ 'a_galaxy_workflow' ] == 'true':
metadata_dict = generate_workflow_metadata( relative_path, exported_workflow_dict, metadata_dict )
# Handle any data manager entries
metadata_dict = generate_data_manager_metadata( app,
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: dannon: Remove toolForm styling from response box in cloudlaunch; strip unused page styles
by commits-noreply＠bitbucket.org 02 Oct '13
by commits-noreply＠bitbucket.org 02 Oct '13
02 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/e416f8c710b6/
Changeset: e416f8c710b6
User: dannon
Date: 2013-10-01 23:32:17
Summary: Remove toolForm styling from response box in cloudlaunch; strip unused page styles
Affected #: 1 file
diff -r addd90e5adcd54cb5d78204093fba5519b95e059 -r e416f8c710b63d7fc9f682539929e9823c26f041 templates/webapps/galaxy/cloud/index.mako
--- a/templates/webapps/galaxy/cloud/index.mako
+++ b/templates/webapps/galaxy/cloud/index.mako
@@ -13,41 +13,9 @@
${parent.stylesheets()}
${h.css( "autocomplete_tagging" )}
<style type="text/css">
- #new_history_p{
- line-height:2.5em;
- margin:0em 0em .5em 0em;
- }
- #new_history_cbx{
- margin-right:.5em;
- }
- #new_history_input{
- display:none;
- line-height:1em;
- }
- #ec_button_container{
- float:right;
- }
#hidden_options{
display:none;
}
- div.toolForm{
- margin-top: 10px;
- margin-bottom: 10px;
- }
- div.toolFormTitle{
- cursor:pointer;
- }
- .title_ul_text{
- text-decoration:underline;
- }
- .step-annotation {
- margin-top: 0.25em;
- font-weight: normal;
- font-size: 97%;
- }
- .workflow-annotation {
- margin-bottom: 1em;
- }
#loading_indicator{
position:fixed;
top:40px;
@@ -285,7 +253,7 @@
</div></form></div>
- <div id="responsePanel" class="toolForm" style="display:none;">
+ <div id="responsePanel" style="display:none;"><div id="launchPending">Launch Pending, please be patient.</div><div id="launchSuccess" style="display:none;"><div id="keypairInfo" style="display:none;margin-bottom:20px;">
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: james_taylor: style: Allow text in buttons to be wrapped
by commits-noreply＠bitbucket.org 02 Oct '13
by commits-noreply＠bitbucket.org 02 Oct '13
02 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/addd90e5adcd/
Changeset: addd90e5adcd
User: james_taylor
Date: 2013-10-01 22:55:54
Summary: style: Allow text in buttons to be wrapped
Affected #: 3 files
diff -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 -r addd90e5adcd54cb5d78204093fba5519b95e059 static/style/blue/base.css
--- a/static/style/blue/base.css
+++ b/static/style/blue/base.css
@@ -753,6 +753,7 @@
.affix{position:fixed}
.navbar-fixed-top .navbar-brand{font-family:Verdana;font-weight:bold;font-size:160%}
pre{overflow:auto;word-wrap:normal;white-space:pre}
+.btn{white-space:normal}
.dropdown-menu{max-width:auto}
input[type="checkbox"],input[type="radio"]{margin-left:0.5ex;margin-right:0.5ex}
.modal-dialog{width:690px}
@@ -1219,7 +1220,7 @@
select,input,textarea{font:inherit}
.form-row select,.form-row textarea,.form-row input[type="text"],.form-row input[type="file"],.form-row input[type="password"]{max-width:90%}
textarea,input[type="text"],input[type="password"]{font-size:12px;line-height:1.428571429;border:1px solid #aaa;padding:3px}
-input[type="submit"],button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}input[type="submit"]:focus,button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
+input[type="submit"],button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;white-space:normal;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}input[type="submit"]:focus,button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
input[type="submit"]:hover,button:hover,input[type="submit"]:focus,button:focus{color:#333;text-decoration:none}
input[type="submit"]:active,button:active,input[type="submit"].active,button.active{outline:0;background-image:none;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,0.125);box-shadow:inset 0 3px 5px rgba(0,0,0,0.125)}
input[type="submit"].disabled,button.disabled,input[type="submit"][disabled],button[disabled],fieldset[disabled] input[type="submit"],fieldset[disabled] button{cursor:not-allowed;pointer-events:none;opacity:.65;filter:alpha(opacity=65);-webkit-box-shadow:none;box-shadow:none}
@@ -1323,7 +1324,7 @@
.state-fg-ok{color:#66AA66}
.state-fg-error{color:#AA6666}
.state-fg-deleted{color:#3399FF}
-button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
+button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;white-space:normal;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
button:hover,button:focus{color:#333;text-decoration:none}
button:active,button.active{outline:0;background-image:none;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,0.125);box-shadow:inset 0 3px 5px rgba(0,0,0,0.125)}
button.disabled,button[disabled],fieldset[disabled] button{cursor:not-allowed;pointer-events:none;opacity:.65;filter:alpha(opacity=65);-webkit-box-shadow:none;box-shadow:none}
@@ -1333,7 +1334,7 @@
button:hover,button:focus,button:active,button.active,.open .dropdown-togglebutton{color:#333;background-color:#dedede;border-color:#a1a1a1}
button:active,button.active,.open .dropdown-togglebutton{background-image:none}
button.disabled,button[disabled],fieldset[disabled] button,button.disabled:hover,button[disabled]:hover,fieldset[disabled] button:hover,button.disabled:focus,button[disabled]:focus,fieldset[disabled] button:focus,button.disabled:active,button[disabled]:active,fieldset[disabled] button:active,button.disabled.active,button[disabled].active,fieldset[disabled] button.active{background-color:#f2f2f2;border-color:#bfbfbf}
-.action-button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}.action-button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
+.action-button{display:inline-block;padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;cursor:pointer;border:1px solid transparent;border-radius:3px;white-space:nowrap;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none;white-space:normal;color:#333;background-color:#f2f2f2;border-color:#bfbfbf}.action-button:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
.action-button:hover,.action-button:focus{color:#333;text-decoration:none}
.action-button:active,.action-button.active{outline:0;background-image:none;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,0.125);box-shadow:inset 0 3px 5px rgba(0,0,0,0.125)}
.action-button.disabled,.action-button[disabled],fieldset[disabled] .action-button{cursor:not-allowed;pointer-events:none;opacity:.65;filter:alpha(opacity=65);-webkit-box-shadow:none;box-shadow:none}
@@ -1346,7 +1347,7 @@
a.action-button{color:#333;text-decoration:none}
.action-button>img{vertical-align:middle}
.action-button:active{outline:0;background-image:none;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,0.125);box-shadow:inset 0 3px 5px rgba(0,0,0,0.125)}
-.menubutton{padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;border:1px solid transparent;border-radius:3px;white-space:nowrap;user-select:none;color:#333;background-color:#f2f2f2;border-color:#bfbfbf;display:inline-block;cursor:pointer;position:relative;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none}.menubutton:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
+.menubutton{padding:4px 10px;margin-bottom:0;font-size:12px;font-weight:normal;line-height:1.428571429;text-align:center;vertical-align:middle;border:1px solid transparent;border-radius:3px;white-space:nowrap;user-select:none;white-space:normal;color:#333;background-color:#f2f2f2;border-color:#bfbfbf;display:inline-block;cursor:pointer;position:relative;-webkit-user-select:none;-moz-user-select:none;-ms-user-select:none;-o-user-select:none;user-select:none}.menubutton:focus{outline:thin dotted #333;outline:5px auto -webkit-focus-ring-color;outline-offset:-2px}
.menubutton:hover,.menubutton:focus{color:#333;text-decoration:none}
.menubutton:active,.menubutton.active{outline:0;background-image:none;-webkit-box-shadow:inset 0 3px 5px rgba(0,0,0,0.125);box-shadow:inset 0 3px 5px rgba(0,0,0,0.125)}
.menubutton.disabled,.menubutton[disabled],fieldset[disabled] .menubutton{cursor:not-allowed;pointer-events:none;opacity:.65;filter:alpha(opacity=65);-webkit-box-shadow:none;box-shadow:none}
@@ -1361,7 +1362,7 @@
.menubutton a{text-decoration:none}
.menubutton .label,.menubutton>label{position:relative;display:inline-block;border-right:none;text-decoration:none;text-align:left;max-height:2.857142858;line-height:1.428571429;overflow:hidden;text-overflow:ellipsis}
.menubutton.popup .label{border-right:solid #bfbfbf 1px;padding-right:6px}
-.menubutton.popup,.menubutton.popup.split{padding-right:18px}.menubutton.popup:after,.menubutton.popup.split:after{margin-top:6px;position:absolute;right:6px;display:inline-block;width:0;height:0;margin-left:2px;vertical-align:middle;border-top:4px solid #000;border-right:4px solid transparent;border-left:4px solid transparent;border-bottom:0 dotted;content:""}.btn-default .menubutton.popup:after,.btn-default .menubutton.popup.split:after{border-top-color:#333}
+.menubutton.popup,.menubutton.popup.split{padding-right:18px}.menubutton.popup:after,.menubutton.popup.split:after{top:45%;position:absolute;right:6px;display:inline-block;width:0;height:0;margin-left:2px;vertical-align:middle;border-top:4px solid #000;border-right:4px solid transparent;border-left:4px solid transparent;border-bottom:0 dotted;content:""}.btn-default .menubutton.popup:after,.btn-default .menubutton.popup.split:after{border-top-color:#333}
.btn-primary .menubutton.popup:after,.btn-primary .menubutton.popup.split:after,.btn-success .menubutton.popup:after,.btn-success .menubutton.popup.split:after,.btn-warning .menubutton.popup:after,.btn-warning .menubutton.popup.split:after,.btn-danger .menubutton.popup:after,.btn-danger .menubutton.popup.split:after,.btn-info .menubutton.popup:after,.btn-info .menubutton.popup.split:after{border-top-color:#fff}
div.popmenu-wrapper{position:absolute;top:100%;z-index:20000}div.popmenu-wrapper ul.dropdown-menu{display:block;position:relative;float:none}
ul.dropdown-menu a{text-decoration:none}
diff -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 -r addd90e5adcd54cb5d78204093fba5519b95e059 static/style/src/less/base.less
--- a/static/style/src/less/base.less
+++ b/static/style/src/less/base.less
@@ -1229,7 +1229,7 @@
&.popup, &.popup.split {
padding-right: 18px;
&:after {
- margin-top: 6px;
+ top: 45%;
position: absolute;
right: 6px;
.caret();
diff -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 -r addd90e5adcd54cb5d78204093fba5519b95e059 static/style/src/less/galaxy_bootstrap/overrides.less
--- a/static/style/src/less/galaxy_bootstrap/overrides.less
+++ b/static/style/src/less/galaxy_bootstrap/overrides.less
@@ -11,11 +11,15 @@
white-space: pre;
}
-
.btn.hover {
@btn:hover();
}
+// Allow text in buttons to wrap
+.btn {
+ white-space: normal;
+}
+
.dropdown-menu {
max-width: auto;
}
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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0
3 new commits in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/dadd5cd688ff/
Changeset: dadd5cd688ff
User: dannon
Date: 2013-10-01 14:19:42
Summary: Fix tab in RequestIDMiddleware
Affected #: 1 file
diff -r 47f3bec46ced8ee624da7431b79e7d95874c28e2 -r dadd5cd688ff53b50bdf01304acfb75f96b8e408 lib/galaxy/web/framework/middleware/request_id.py
--- a/lib/galaxy/web/framework/middleware/request_id.py
+++ b/lib/galaxy/web/framework/middleware/request_id.py
@@ -8,5 +8,5 @@
def __init__( self, app, global_conf=None ):
self.app = app
def __call__( self, environ, start_response ):
- environ['request_id'] = uuid.uuid1().hex
- return self.app( environ, start_response )
\ No newline at end of file
+ environ['request_id'] = uuid.uuid1().hex
+ return self.app( environ, start_response )
https://bitbucket.org/galaxy/galaxy-central/commits/a5764a397a98/
Changeset: a5764a397a98
User: dannon
Date: 2013-10-01 21:56:26
Summary: Force send_redirect to encode the url as utf-8. This should resolve all uwsgi unicode issues
Affected #: 1 file
diff -r dadd5cd688ff53b50bdf01304acfb75f96b8e408 -r a5764a397a989eb30e890d974c04f877ff169b0b lib/galaxy/web/framework/base.py
--- a/lib/galaxy/web/framework/base.py
+++ b/lib/galaxy/web/framework/base.py
@@ -379,7 +379,7 @@
"""
Send an HTTP redirect response to (target `url`)
"""
- raise httpexceptions.HTTPFound( url, headers=self.wsgi_headeritems() )
+ raise httpexceptions.HTTPFound( url.encode('utf-8'), headers=self.wsgi_headeritems() )
def wsgi_headeritems( self ):
"""
https://bitbucket.org/galaxy/galaxy-central/commits/1d49fb745d2f/
Changeset: 1d49fb745d2f
User: dannon
Date: 2013-10-01 21:56:34
Summary: Merge
Affected #: 46 files
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py
--- a/lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py
+++ b/lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py
@@ -15,6 +15,13 @@
deprecated_tip_str = ''
return '<img src="/static/images/icon_error_sml.gif" %s/>' % deprecated_tip_str
+def generate_includes_workflows_img_str( include_mouse_over=False ):
+ if include_mouse_over:
+ deprecated_tip_str = 'class="icon-button" title="This repository contains exported workflows"'
+ else:
+ deprecated_tip_str = ''
+ return '<img src="/static/images/fugue/gear.png" %s/>' % deprecated_tip_str
+
def generate_latest_revision_img_str( include_mouse_over=False ):
if include_mouse_over:
latest_revision_tip_str = 'class="icon-button" title="This is the latest installable revision of this repository"'
@@ -60,6 +67,8 @@
tool_shed_status_str += generate_revision_updates_img_str( include_mouse_over=True )
if tool_shed_repository.upgrade_available:
tool_shed_status_str += generate_revision_upgrades_img_str( include_mouse_over=True )
+ if tool_shed_repository.includes_workflows:
+ tool_shed_status_str += generate_includes_workflows_img_str( include_mouse_over=True )
else:
tool_shed_status_str = generate_unknown_img_str( include_mouse_over=True )
return tool_shed_status_str
@@ -211,7 +220,11 @@
use_paging = False
def build_initial_query( self, trans, **kwd ):
- return trans.sa_session.query( self.model_class )
+ return trans.sa_session.query( self.model_class ) \
+ .order_by( self.model_class.table.c.tool_shed,
+ self.model_class.table.c.name,
+ self.model_class.table.c.owner,
+ self.model_class.table.c.ctx_rev )
@property
def legend( self ):
@@ -219,6 +232,7 @@
legend_str += '%s A newer installable revision is available for this repository<br/>' % generate_revision_upgrades_img_str()
legend_str += '%s This is the latest installable revision of this repository<br/>' % generate_latest_revision_img_str()
legend_str += '%s This repository is deprecated in the Tool Shed<br/>' % generate_deprecated_repository_img_str()
+ legend_str += '%s This repository contains exported workflows<br/>' % generate_includes_workflows_img_str()
legend_str += '%s Unable to get information from the Tool Shed<br/>' % generate_unknown_img_str()
return legend_str
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 lib/tool_shed/galaxy_install/install_manager.py
--- a/lib/tool_shed/galaxy_install/install_manager.py
+++ b/lib/tool_shed/galaxy_install/install_manager.py
@@ -133,7 +133,7 @@
# Install path is of the form: <tool path>/<tool shed>/repos/<repository owner>/<repository name>/<installed changeset revision>
relative_clone_dir = os.path.join( self.tool_shed, 'repos', owner, name, changeset_revision )
clone_dir = os.path.join( self.tool_path, relative_clone_dir )
- if not self.__isinstalled( clone_dir ):
+ if not self.__iscloned( clone_dir ):
repository_clone_url = os.path.join( self.tool_shed_url, 'repos', owner, name )
relative_install_dir = os.path.join( relative_clone_dir, name )
install_dir = os.path.join( clone_dir, name )
@@ -478,7 +478,15 @@
tool_shed_repository.name,
tool_shed_repository.installed_changeset_revision )
clone_dir = os.path.join( self.tool_path, relative_clone_dir )
- if self.__isinstalled( clone_dir ):
+ cloned_ok = self.__iscloned( clone_dir )
+ is_installed = False
+ # Any of the following states should count as installed in this context.
+ if tool_shed_repository.status in [ self.app.model.ToolShedRepository.installation_status.INSTALLED,
+ self.app.model.ToolShedRepository.installation_status.ERROR,
+ self.app.model.ToolShedRepository.installation_status.UNINSTALLED,
+ self.app.model.ToolShedRepository.installation_status.DEACTIVATED ]:
+ is_installed = True
+ if cloned_ok and is_installed:
print "Skipping automatic install of repository '", tool_shed_repository.name, "' because it has already been installed in location ", clone_dir
else:
repository_clone_url = os.path.join( self.tool_shed_url, 'repos', tool_shed_repository.owner, tool_shed_repository.name )
@@ -489,9 +497,10 @@
tool_shed_repository.name,
tool_shed_repository.owner,
tool_shed_repository.installed_changeset_revision )
- suc.update_tool_shed_repository_status( self.app, tool_shed_repository, self.app.model.ToolShedRepository.installation_status.CLONING )
- cloned_ok, error_message = suc.clone_repository( repository_clone_url, os.path.abspath( install_dir ), ctx_rev )
- if cloned_ok:
+ if not cloned_ok:
+ suc.update_tool_shed_repository_status( self.app, tool_shed_repository, self.app.model.ToolShedRepository.installation_status.CLONING )
+ cloned_ok, error_message = suc.clone_repository( repository_clone_url, os.path.abspath( install_dir ), ctx_rev )
+ if cloned_ok and not is_installed:
self.handle_repository_contents( tool_shed_repository=tool_shed_repository,
repository_clone_url=repository_clone_url,
relative_install_dir=relative_install_dir,
@@ -592,7 +601,7 @@
return True
return False
- def __isinstalled( self, clone_dir ):
+ def __iscloned( self, clone_dir ):
full_path = os.path.abspath( clone_dir )
if os.path.exists( full_path ):
for root, dirs, files in os.walk( full_path ):
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 lib/tool_shed/galaxy_install/migrate/versions/0008_tools.py
--- a/lib/tool_shed/galaxy_install/migrate/versions/0008_tools.py
+++ b/lib/tool_shed/galaxy_install/migrate/versions/0008_tools.py
@@ -6,45 +6,49 @@
3: Compute Motif Frequencies For All Motifs motif by motif
4: Compute Motif Frequencies in indel flanking regions
5: CTD analysis of chemicals, diseases, or genes
-6: Delete Overlapping Indels from a chromosome indels file
-7: Separate pgSnp alleles into columns
-8: Draw Stacked Bar Plots for different categories and different criteria
-9: Length Distribution chart
-10: FASTA Width formatter
-11: RNA/DNA converter
-12: Draw quality score boxplot
-13: Quality format converter (ASCII-Numeric)
-14: Filter by quality
-15: FASTQ to FASTA converter
-16: Remove sequencing artifacts
-17: Barcode Splitter
-18: Clip adapter sequences
-19: Collapse sequences
-20: Draw nucleotides distribution chart
-21: Compute quality statistics
-22: Rename sequences
-23: Reverse- Complement
-24: Trim sequences
-25: FunDO human genes associated with disease terms
-26: HVIS visualization of genomic data with the Hilbert curve
-27: Fetch Indels from 3-way alignments
-28: Identify microsatellite births and deaths
-29: Extract orthologous microsatellites for multiple (>2) species alignments
-30: Mutate Codons with SNPs
-31: Pileup-to-Interval condenses pileup format into ranges of bases
-32: Filter pileup on coverage and SNPs
-33: Filter SAM on bitwise flag values
-34: Merge BAM Files merges BAM files together
-35: Generate pileup from BAM dataset
-36: SAM-to-BAM converts SAM format to BAM format
-37: Convert SAM to interval
-38: flagstat provides simple stats on BAM files
-39: MPileup SNP and indel caller
-40: rmdup remove PCR duplicates
-41: Slice BAM by provided regions
-42: Split paired end reads
-43: T Test for Two Samples
-44: Plotting tool for multiple series and graph types.
+6: Cuffcompare
+7: Cuffdiff
+8: Cufflinks
+9: Cuffmerge
+10: Delete Overlapping Indels from a chromosome indels file
+11: Separate pgSnp alleles into columns
+12: Draw Stacked Bar Plots for different categories and different criteria
+13: Length Distribution chart
+14: FASTA Width formatter
+15: RNA/DNA converter
+16: Draw quality score boxplot
+17: Quality format converter (ASCII-Numeric)
+18: Filter by quality
+19: FASTQ to FASTA converter
+20: Remove sequencing artifacts
+21: Barcode Splitter
+22: Clip adapter sequences
+23: Collapse sequences
+24: Draw nucleotides distribution chart
+25: Compute quality statistics
+26: Rename sequences
+27: Reverse- Complement
+28: Trim sequences
+29: FunDO human genes associated with disease terms
+30: HVIS visualization of genomic data with the Hilbert curve
+31: Fetch Indels from 3-way alignments
+32: Identify microsatellite births and deaths
+33: Extract orthologous microsatellites for multiple (>2) species alignments
+34: Mutate Codons with SNPs
+35: Pileup-to-Interval condenses pileup format into ranges of bases
+36: Filter pileup on coverage and SNPs
+37: Filter SAM on bitwise flag values
+38: Merge BAM Files merges BAM files together
+39: Generate pileup from BAM dataset
+40: SAM-to-BAM converts SAM format to BAM format
+41: Convert SAM to interval
+42: flagstat provides simple stats on BAM files
+43: MPileup SNP and indel caller
+44: rmdup remove PCR duplicates
+45: Slice BAM by provided regions
+46: Split paired end reads
+47: T Test for Two Samples
+48: Plotting tool for multiple series and graph types.
The tools are now available in the repositories respectively:
@@ -53,45 +57,49 @@
3: compute_motif_frequencies_for_all_motifs
4: compute_motifs_frequency
5: ctd_batch
-6: delete_overlapping_indels
-7: divide_pg_snp
-8: draw_stacked_barplots
-9: fasta_clipping_histogram
-10: fasta_formatter
-11: fasta_nucleotide_changer
-12: fastq_quality_boxplot
-13: fastq_quality_converter
-14: fastq_quality_filter
-15: fastq_to_fasta
-16: fastx_artifacts_filter
-17: fastx_barcode_splitter
-18: fastx_clipper
-19: fastx_collapser
-20: fastx_nucleotides_distribution
-21: fastx_quality_statistics
-22: fastx_renamer
-23: fastx_reverse_complement
-24: fastx_trimmer
-25: hgv_fundo
-26: hgv_hilbertvis
-27: indels_3way
-28: microsatellite_birthdeath
-29: multispecies_orthologous_microsats
-30: mutate_snp_codon
-31: pileup_interval
-32: pileup_parser
-33: sam_bitwise_flag_filter
-34: sam_merge
-35: sam_pileup
-36: sam_to_bam
-37: sam2interval
-38: samtools_flagstat
-39: samtools_mpileup
-40: samtools_rmdup
-41: samtools_slice_bam
-42: split_paired_reads
-43: t_test_two_samples
-44: xy_plot
+6: cuffcompare
+7: cuffdiff
+8: cufflinks
+9: cuffmerge
+10: delete_overlapping_indels
+11: divide_pg_snp
+12: draw_stacked_barplots
+13: fasta_clipping_histogram
+14: fasta_formatter
+15: fasta_nucleotide_changer
+16: fastq_quality_boxplot
+17: fastq_quality_converter
+18: fastq_quality_filter
+19: fastq_to_fasta
+20: fastx_artifacts_filter
+21: fastx_barcode_splitter
+22: fastx_clipper
+23: fastx_collapser
+24: fastx_nucleotides_distribution
+25: fastx_quality_statistics
+26: fastx_renamer
+27: fastx_reverse_complement
+28: fastx_trimmer
+29: hgv_fundo
+30: hgv_hilbertvis
+31: indels_3way
+32: microsatellite_birthdeath
+33: multispecies_orthologous_microsats
+34: mutate_snp_codon
+35: pileup_interval
+36: pileup_parser
+37: sam_bitwise_flag_filter
+38: sam_merge
+39: sam_pileup
+40: sam_to_bam
+41: sam2interval
+42: samtools_flagstat
+43: samtools_mpileup
+44: samtools_rmdup
+45: samtools_slice_bam
+46: split_paired_reads
+47: t_test_two_samples
+48: xy_plot
from the main Galaxy tool shed at http://toolshed.g2.bx.psu.edu
and will be installed into your local Galaxy instance at the
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 lib/tool_shed/galaxy_install/repository_util.py
--- a/lib/tool_shed/galaxy_install/repository_util.py
+++ b/lib/tool_shed/galaxy_install/repository_util.py
@@ -352,6 +352,10 @@
updating_installed_repository=False,
persist=True )
tool_shed_repository.metadata = metadata_dict
+ # Update the tool_shed_repository.tool_shed_status column in the database.
+ tool_shed_status_dict = suc.get_tool_shed_status_for_installed_repository( trans.app, tool_shed_repository )
+ if tool_shed_status_dict:
+ tool_shed_repository.tool_shed_status = tool_shed_status_dict
trans.sa_session.add( tool_shed_repository )
trans.sa_session.flush()
if 'tool_dependencies' in metadata_dict and not reinstalling:
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py
--- a/lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py
+++ b/lib/tool_shed/galaxy_install/tool_dependencies/fabric_util.py
@@ -272,7 +272,11 @@
with lcd( current_dir ):
action_type, action_dict = action_tup
if action_type == 'make_directory':
- td_common_util.make_directory( full_path=action_dict[ 'full_path' ] )
+ if os.path.isabs( action_dict[ 'full_path' ] ):
+ full_path = action_dict[ 'full_path' ]
+ else:
+ full_path = os.path.join( current_dir, action_dict[ 'full_path' ] )
+ td_common_util.make_directory( full_path=full_path )
elif action_type == 'move_directory_files':
td_common_util.move_directory_files( current_dir=current_dir,
source_dir=os.path.join( action_dict[ 'source_directory' ] ),
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 scripts/migrate_tools/0008_tools.xml
--- a/scripts/migrate_tools/0008_tools.xml
+++ b/scripts/migrate_tools/0008_tools.xml
@@ -15,6 +15,18 @@
<repository owner="devteam" changeset_revision="4a32700dcaa2" name="ctd_batch" description="Galaxy wrappers for the tool CTD: analysis of chemicals, diseases, or genes"><tool id="ctdBatch_1" version="1.0.0" file="ctd.xml" /></repository>
+ <repository owner="devteam" changeset_revision="9a3f7a890da6" name="cuffcompare" description="Galaxy wrappers for the Cuffcompare tool.">
+ <tool id="cuffcompare" version="0.0.5" file="cuffcompare_wrapper.xml" />
+ </repository>
+ <repository owner="devteam" changeset_revision="0dabb2ed6eb1" name="cuffdiff" description="Galaxy wrappers for the Cuffdiff tool.">
+ <tool id="cuffdiff" version="0.0.6" file="cuffdiff_wrapper.xml" />
+ </repository>
+ <repository owner="devteam" changeset_revision="b01956f26c36" name="cufflinks" description="Galaxy wrappers for the Cufflinks tool.">
+ <tool id="cufflinks" version="0.0.6" file="cufflinks_wrapper.xml" />
+ </repository>
+ <repository owner="devteam" changeset_revision="fdc55fd74f78" name="cuffmerge" description="Galaxy wrappers for the Cuffmerge tool.">
+ <tool id="cuffmerge" version="0.0.5" file="cuffmerge_wrapper.xml" />
+ </repository><repository owner="devteam" changeset_revision="f16000dc644b" name="delete_overlapping_indels" description="Galaxy wrappers for the tool Delete Overlapping Indels: from a chromosome indels file"><tool id="delete_overlapping_indels" version="1.0.0" file="delete_overlapping_indels.xml" /></repository>
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 templates/admin/review_tool_migration_stages.mako
--- a/templates/admin/review_tool_migration_stages.mako
+++ b/templates/admin/review_tool_migration_stages.mako
@@ -35,6 +35,7 @@
</p></div><table class="grid">
+ <% from tool_shed.util.shed_util_common import to_html_string %>
%for stage in migration_stages_dict.keys():
<%
migration_command = 'sh ./scripts/migrate_tools/%04d_tools.sh' % stage
@@ -54,7 +55,7 @@
<tr><td bgcolor="#FFFFCC"><div class="form-row">
- <p>${migration_info} <b>Run commands from the Galaxy installation directory!</b></p>
+ <p>${to_html_string(migration_info)} <b>Run commands from the Galaxy installation directory!</b></p><p>
%if tool_dependencies:
This migration stage includes tools that have tool dependencies that can be automatically installed. To install them, run:<br/>
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_in2.gtf
--- a/test-data/cuffcompare_in2.gtf
+++ /dev/null
@@ -1,100 +0,0 @@
-chr1 Cufflinks transcript 3174766 3174792 1000 . . gene_id "CUFF.1"; transcript_id "CUFF.1.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3174766 3174792 1000 . . gene_id "CUFF.1"; transcript_id "CUFF.1.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3187402 3187428 1000 . . gene_id "CUFF.3"; transcript_id "CUFF.3.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3187402 3187428 1000 . . gene_id "CUFF.3"; transcript_id "CUFF.3.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3188522 3188548 1000 . . gene_id "CUFF.5"; transcript_id "CUFF.5.1"; FPKM "21.2266273824"; frac "1.000000"; conf_lo "0.000000"; conf_hi "59.889707"; cov "1.205672";
-chr1 Cufflinks exon 3188522 3188548 1000 . . gene_id "CUFF.5"; transcript_id "CUFF.5.1"; exon_number "1"; FPKM "21.2266273824"; frac "1.000000"; conf_lo "0.000000"; conf_hi "59.889707"; cov "1.205672";
-chr1 Cufflinks transcript 3190859 3191434 1000 . . gene_id "CUFF.7"; transcript_id "CUFF.7.1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "19.806349"; conf_hi "39.612698"; cov "1.687500";
-chr1 Cufflinks exon 3190859 3191434 1000 . . gene_id "CUFF.7"; transcript_id "CUFF.7.1"; exon_number "1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "19.806349"; conf_hi "39.612698"; cov "1.687500";
-chr1 Cufflinks transcript 3191513 3192077 1000 . . gene_id "CUFF.9"; transcript_id "CUFF.9.1"; FPKM "34.0729325807"; frac "1.000000"; conf_lo "23.364686"; conf_hi "44.781179"; cov "1.935341";
-chr1 Cufflinks exon 3191513 3192077 1000 . . gene_id "CUFF.9"; transcript_id "CUFF.9.1"; exon_number "1"; FPKM "34.0729325807"; frac "1.000000"; conf_lo "23.364686"; conf_hi "44.781179"; cov "1.935341";
-chr1 Cufflinks transcript 3189811 3190789 1000 . . gene_id "CUFF.11"; transcript_id "CUFF.11.1"; FPKM "32.5317765567"; frac "1.000000"; conf_lo "24.582998"; conf_hi "40.480555"; cov "1.847804";
-chr1 Cufflinks exon 3189811 3190789 1000 . . gene_id "CUFF.11"; transcript_id "CUFF.11.1"; exon_number "1"; FPKM "32.5317765567"; frac "1.000000"; conf_lo "24.582998"; conf_hi "40.480555"; cov "1.847804";
-chr1 Cufflinks transcript 3192251 3192336 1000 . . gene_id "CUFF.13"; transcript_id "CUFF.13.1"; FPKM "16.5820596576"; frac "1.000000"; conf_lo "0.000000"; conf_hi "35.729373"; cov "0.941860";
-chr1 Cufflinks exon 3192251 3192336 1000 . . gene_id "CUFF.13"; transcript_id "CUFF.13.1"; exon_number "1"; FPKM "16.5820596576"; frac "1.000000"; conf_lo "0.000000"; conf_hi "35.729373"; cov "0.941860";
-chr1 Cufflinks transcript 3192650 3192676 1000 . . gene_id "CUFF.15"; transcript_id "CUFF.15.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3192650 3192676 1000 . . gene_id "CUFF.15"; transcript_id "CUFF.15.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3194707 3194733 1000 . . gene_id "CUFF.17"; transcript_id "CUFF.17.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3194707 3194733 1000 . . gene_id "CUFF.17"; transcript_id "CUFF.17.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3197426 3197452 1000 . . gene_id "CUFF.19"; transcript_id "CUFF.19.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3197426 3197452 1000 . . gene_id "CUFF.19"; transcript_id "CUFF.19.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3200431 3200457 1000 . . gene_id "CUFF.21"; transcript_id "CUFF.21.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3200431 3200457 1000 . . gene_id "CUFF.21"; transcript_id "CUFF.21.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3200057 3200144 1000 . . gene_id "CUFF.23"; transcript_id "CUFF.23.1"; FPKM "16.2051946653"; frac "1.000000"; conf_lo "0.000000"; conf_hi "34.917342"; cov "0.920455";
-chr1 Cufflinks exon 3200057 3200144 1000 . . gene_id "CUFF.23"; transcript_id "CUFF.23.1"; exon_number "1"; FPKM "16.2051946653"; frac "1.000000"; conf_lo "0.000000"; conf_hi "34.917342"; cov "0.920455";
-chr1 Cufflinks transcript 3201161 3201187 1000 . . gene_id "CUFF.25"; transcript_id "CUFF.25.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3201161 3201187 1000 . . gene_id "CUFF.25"; transcript_id "CUFF.25.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3201008 3201039 1000 . . gene_id "CUFF.26"; transcript_id "CUFF.26.1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "0.000000"; conf_hi "71.725135"; cov "1.687500";
-chr1 Cufflinks exon 3201008 3201039 1000 . . gene_id "CUFF.26"; transcript_id "CUFF.26.1"; exon_number "1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "0.000000"; conf_hi "71.725135"; cov "1.687500";
-chr1 Cufflinks transcript 3201597 3201666 1000 . . gene_id "CUFF.29"; transcript_id "CUFF.29.1"; FPKM "13.5814964814"; frac "1.000000"; conf_lo "0.000000"; conf_hi "32.788633"; cov "0.771429";
-chr1 Cufflinks exon 3201597 3201666 1000 . . gene_id "CUFF.29"; transcript_id "CUFF.29.1"; exon_number "1"; FPKM "13.5814964814"; frac "1.000000"; conf_lo "0.000000"; conf_hi "32.788633"; cov "0.771429";
-chr1 Cufflinks transcript 3201726 3201809 1000 . . gene_id "CUFF.31"; transcript_id "CUFF.31.1"; FPKM "22.6358274691"; frac "1.000000"; conf_lo "0.000000"; conf_hi "45.271655"; cov "1.285714";
-chr1 Cufflinks exon 3201726 3201809 1000 . . gene_id "CUFF.31"; transcript_id "CUFF.31.1"; exon_number "1"; FPKM "22.6358274691"; frac "1.000000"; conf_lo "0.000000"; conf_hi "45.271655"; cov "1.285714";
-chr1 Cufflinks transcript 3211522 3211561 1000 . . gene_id "CUFF.33"; transcript_id "CUFF.33.1"; FPKM "23.7676188425"; frac "1.000000"; conf_lo "0.000000"; conf_hi "57.380108"; cov "1.350000";
-chr1 Cufflinks exon 3211522 3211561 1000 . . gene_id "CUFF.33"; transcript_id "CUFF.33.1"; exon_number "1"; FPKM "23.7676188425"; frac "1.000000"; conf_lo "0.000000"; conf_hi "57.380108"; cov "1.350000";
-chr1 Cufflinks transcript 3212718 3212801 1000 . . gene_id "CUFF.35"; transcript_id "CUFF.35.1"; FPKM "11.3179137345"; frac "1.000000"; conf_lo "0.000000"; conf_hi "27.323861"; cov "0.642857";
-chr1 Cufflinks exon 3212718 3212801 1000 . . gene_id "CUFF.35"; transcript_id "CUFF.35.1"; exon_number "1"; FPKM "11.3179137345"; frac "1.000000"; conf_lo "0.000000"; conf_hi "27.323861"; cov "0.642857";
-chr1 Cufflinks transcript 3213119 3213242 1000 . . gene_id "CUFF.37"; transcript_id "CUFF.37.1"; FPKM "11.5004607302"; frac "1.000000"; conf_lo "0.000000"; conf_hi "24.780049"; cov "0.653226";
-chr1 Cufflinks exon 3213119 3213242 1000 . . gene_id "CUFF.37"; transcript_id "CUFF.37.1"; exon_number "1"; FPKM "11.5004607302"; frac "1.000000"; conf_lo "0.000000"; conf_hi "24.780049"; cov "0.653226";
-chr1 Cufflinks transcript 3240607 3240633 1000 . . gene_id "CUFF.39"; transcript_id "CUFF.39.1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks exon 3240607 3240633 1000 . . gene_id "CUFF.39"; transcript_id "CUFF.39.1"; exon_number "1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks transcript 3242480 3242512 1000 . . gene_id "CUFF.41"; transcript_id "CUFF.41.1"; FPKM "43.2138524409"; frac "1.000000"; conf_lo "0.000000"; conf_hi "93.112911"; cov "2.454545";
-chr1 Cufflinks exon 3242480 3242512 1000 . . gene_id "CUFF.41"; transcript_id "CUFF.41.1"; exon_number "1"; FPKM "43.2138524409"; frac "1.000000"; conf_lo "0.000000"; conf_hi "93.112911"; cov "2.454545";
-chr1 Cufflinks transcript 3242925 3243005 1000 . . gene_id "CUFF.43"; transcript_id "CUFF.43.1"; FPKM "23.4741914494"; frac "1.000000"; conf_lo "0.000000"; conf_hi "46.948383"; cov "1.333333";
-chr1 Cufflinks exon 3242925 3243005 1000 . . gene_id "CUFF.43"; transcript_id "CUFF.43.1"; exon_number "1"; FPKM "23.4741914494"; frac "1.000000"; conf_lo "0.000000"; conf_hi "46.948383"; cov "1.333333";
-chr1 Cufflinks transcript 3243109 3243154 1000 . . gene_id "CUFF.45"; transcript_id "CUFF.45.1"; FPKM "20.6674946457"; frac "1.000000"; conf_lo "0.000000"; conf_hi "49.895746"; cov "1.173913";
-chr1 Cufflinks exon 3243109 3243154 1000 . . gene_id "CUFF.45"; transcript_id "CUFF.45.1"; exon_number "1"; FPKM "20.6674946457"; frac "1.000000"; conf_lo "0.000000"; conf_hi "49.895746"; cov "1.173913";
-chr1 Cufflinks transcript 3254080 3254106 1000 . . gene_id "CUFF.47"; transcript_id "CUFF.47.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3254080 3254106 1000 . . gene_id "CUFF.47"; transcript_id "CUFF.47.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3277156 3277182 1000 . . gene_id "CUFF.49"; transcript_id "CUFF.49.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3277156 3277182 1000 . . gene_id "CUFF.49"; transcript_id "CUFF.49.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3277914 3278390 1000 . . gene_id "CUFF.51"; transcript_id "CUFF.51.1"; FPKM "14.9481879513"; frac "1.000000"; conf_lo "7.228977"; conf_hi "22.667399"; cov "0.849057";
-chr1 Cufflinks exon 3277914 3278390 1000 . . gene_id "CUFF.51"; transcript_id "CUFF.51.1"; exon_number "1"; FPKM "14.9481879513"; frac "1.000000"; conf_lo "7.228977"; conf_hi "22.667399"; cov "0.849057";
-chr1 Cufflinks transcript 3280118 3280144 1000 . . gene_id "CUFF.53"; transcript_id "CUFF.53.1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks exon 3280118 3280144 1000 . . gene_id "CUFF.53"; transcript_id "CUFF.53.1"; exon_number "1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks transcript 3280499 3280525 1000 . . gene_id "CUFF.55"; transcript_id "CUFF.55.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3280499 3280525 1000 . . gene_id "CUFF.55"; transcript_id "CUFF.55.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3282505 3282531 1000 . . gene_id "CUFF.57"; transcript_id "CUFF.57.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3282505 3282531 1000 . . gene_id "CUFF.57"; transcript_id "CUFF.57.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3282651 3282677 1000 . . gene_id "CUFF.59"; transcript_id "CUFF.59.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3282651 3282677 1000 . . gene_id "CUFF.59"; transcript_id "CUFF.59.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3282761 3282832 1000 . . gene_id "CUFF.61"; transcript_id "CUFF.61.1"; FPKM "13.2042326903"; frac "1.000000"; conf_lo "0.000000"; conf_hi "31.877838"; cov "0.750000";
-chr1 Cufflinks exon 3282761 3282832 1000 . . gene_id "CUFF.61"; transcript_id "CUFF.61.1"; exon_number "1"; FPKM "13.2042326903"; frac "1.000000"; conf_lo "0.000000"; conf_hi "31.877838"; cov "0.750000";
-chr1 Cufflinks transcript 3284967 3284993 1000 . . gene_id "CUFF.63"; transcript_id "CUFF.63.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3284967 3284993 1000 . . gene_id "CUFF.63"; transcript_id "CUFF.63.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3290799 3290859 1000 . . gene_id "CUFF.65"; transcript_id "CUFF.65.1"; FPKM "31.1706476623"; frac "1.000000"; conf_lo "0.000000"; conf_hi "62.341295"; cov "1.770492";
-chr1 Cufflinks exon 3290799 3290859 1000 . . gene_id "CUFF.65"; transcript_id "CUFF.65.1"; exon_number "1"; FPKM "31.1706476623"; frac "1.000000"; conf_lo "0.000000"; conf_hi "62.341295"; cov "1.770492";
-chr1 Cufflinks transcript 3299444 3299640 1000 . . gene_id "CUFF.67"; transcript_id "CUFF.67.1"; FPKM "15.6813507371"; frac "1.000000"; conf_lo "3.378764"; conf_hi "27.983938"; cov "0.890700";
-chr1 Cufflinks exon 3299444 3299640 1000 . . gene_id "CUFF.67"; transcript_id "CUFF.67.1"; exon_number "1"; FPKM "15.6813507371"; frac "1.000000"; conf_lo "3.378764"; conf_hi "27.983938"; cov "0.890700";
-chr1 Cufflinks transcript 3290920 3291273 1000 . . gene_id "CUFF.69"; transcript_id "CUFF.69.1"; FPKM "18.7992465421"; frac "1.000000"; conf_lo "8.750627"; conf_hi "28.847866"; cov "1.067797";
-chr1 Cufflinks exon 3290920 3291273 1000 . . gene_id "CUFF.69"; transcript_id "CUFF.69.1"; exon_number "1"; FPKM "18.7992465421"; frac "1.000000"; conf_lo "8.750627"; conf_hi "28.847866"; cov "1.067797";
-chr1 Cufflinks transcript 3299692 3299733 1000 . . gene_id "CUFF.71"; transcript_id "CUFF.71.1"; FPKM "22.6358274691"; frac "1.000000"; conf_lo "0.000000"; conf_hi "54.647722"; cov "1.285714";
-chr1 Cufflinks exon 3299692 3299733 1000 . . gene_id "CUFF.71"; transcript_id "CUFF.71.1"; exon_number "1"; FPKM "22.6358274691"; frac "1.000000"; conf_lo "0.000000"; conf_hi "54.647722"; cov "1.285714";
-chr1 Cufflinks transcript 3307749 3307775 1000 . . gene_id "CUFF.73"; transcript_id "CUFF.73.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3307749 3307775 1000 . . gene_id "CUFF.73"; transcript_id "CUFF.73.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3318621 3318647 1000 . . gene_id "CUFF.75"; transcript_id "CUFF.75.1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks exon 3318621 3318647 1000 . . gene_id "CUFF.75"; transcript_id "CUFF.75.1"; exon_number "1"; FPKM "52.8169307611"; frac "1.000000"; conf_lo "0.000000"; conf_hi "113.804669"; cov "3.000000";
-chr1 Cufflinks transcript 3330528 3330554 1000 . . gene_id "CUFF.77"; transcript_id "CUFF.77.1"; FPKM "17.6056435870"; frac "1.000000"; conf_lo "0.000000"; conf_hi "52.816931"; cov "1.000000";
-chr1 Cufflinks exon 3330528 3330554 1000 . . gene_id "CUFF.77"; transcript_id "CUFF.77.1"; exon_number "1"; FPKM "17.6056435870"; frac "1.000000"; conf_lo "0.000000"; conf_hi "52.816931"; cov "1.000000";
-chr1 Cufflinks transcript 3351241 3351311 1000 . . gene_id "CUFF.79"; transcript_id "CUFF.79.1"; FPKM "13.3902077986"; frac "1.000000"; conf_lo "0.000000"; conf_hi "32.326821"; cov "0.760563";
-chr1 Cufflinks exon 3351241 3351311 1000 . . gene_id "CUFF.79"; transcript_id "CUFF.79.1"; exon_number "1"; FPKM "13.3902077986"; frac "1.000000"; conf_lo "0.000000"; conf_hi "32.326821"; cov "0.760563";
-chr1 Cufflinks transcript 3355908 3356119 1000 . . gene_id "CUFF.81"; transcript_id "CUFF.81.1"; FPKM "11.2111409634"; frac "1.000000"; conf_lo "1.183592"; conf_hi "21.238690"; cov "0.636792";
-chr1 Cufflinks exon 3355908 3356119 1000 . . gene_id "CUFF.81"; transcript_id "CUFF.81.1"; exon_number "1"; FPKM "11.2111409634"; frac "1.000000"; conf_lo "1.183592"; conf_hi "21.238690"; cov "0.636792";
-chr1 Cufflinks transcript 3356181 3356225 1000 . . gene_id "CUFF.83"; transcript_id "CUFF.83.1"; FPKM "21.1267723045"; frac "1.000000"; conf_lo "0.000000"; conf_hi "51.004540"; cov "1.200000";
-chr1 Cufflinks exon 3356181 3356225 1000 . . gene_id "CUFF.83"; transcript_id "CUFF.83.1"; exon_number "1"; FPKM "21.1267723045"; frac "1.000000"; conf_lo "0.000000"; conf_hi "51.004540"; cov "1.200000";
-chr1 Cufflinks transcript 3363077 3363176 1000 . . gene_id "CUFF.85"; transcript_id "CUFF.85.1"; FPKM "19.0140950740"; frac "1.000000"; conf_lo "0.000000"; conf_hi "38.028190"; cov "1.080000";
-chr1 Cufflinks exon 3363077 3363176 1000 . . gene_id "CUFF.85"; transcript_id "CUFF.85.1"; exon_number "1"; FPKM "19.0140950740"; frac "1.000000"; conf_lo "0.000000"; conf_hi "38.028190"; cov "1.080000";
-chr1 Cufflinks transcript 3363388 3363446 1000 . . gene_id "CUFF.87"; transcript_id "CUFF.87.1"; FPKM "24.1704598398"; frac "1.000000"; conf_lo "0.000000"; conf_hi "52.080103"; cov "1.372881";
-chr1 Cufflinks exon 3363388 3363446 1000 . . gene_id "CUFF.87"; transcript_id "CUFF.87.1"; exon_number "1"; FPKM "24.1704598398"; frac "1.000000"; conf_lo "0.000000"; conf_hi "52.080103"; cov "1.372881";
-chr1 Cufflinks transcript 3364872 3364919 1000 . . gene_id "CUFF.89"; transcript_id "CUFF.89.1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "0.000000"; conf_hi "64.015126"; cov "1.687500";
-chr1 Cufflinks exon 3364872 3364919 1000 . . gene_id "CUFF.89"; transcript_id "CUFF.89.1"; exon_number "1"; FPKM "29.7095235531"; frac "1.000000"; conf_lo "0.000000"; conf_hi "64.015126"; cov "1.687500";
-chr1 Cufflinks transcript 3367211 3367237 1000 . . gene_id "CUFF.91"; transcript_id "CUFF.91.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3367211 3367237 1000 . . gene_id "CUFF.91"; transcript_id "CUFF.91.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3369581 3369607 1000 . . gene_id "CUFF.93"; transcript_id "CUFF.93.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3369581 3369607 1000 . . gene_id "CUFF.93"; transcript_id "CUFF.93.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3375002 3375028 1000 . . gene_id "CUFF.95"; transcript_id "CUFF.95.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3375002 3375028 1000 . . gene_id "CUFF.95"; transcript_id "CUFF.95.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3379889 3379915 1000 . . gene_id "CUFF.97"; transcript_id "CUFF.97.1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks exon 3379889 3379915 1000 . . gene_id "CUFF.97"; transcript_id "CUFF.97.1"; exon_number "1"; FPKM "35.2112871741"; frac "1.000000"; conf_lo "0.000000"; conf_hi "85.007567"; cov "2.000000";
-chr1 Cufflinks transcript 3386740 3386836 1000 . . gene_id "CUFF.99"; transcript_id "CUFF.99.1"; FPKM "19.6021598701"; frac "1.000000"; conf_lo "0.000000"; conf_hi "39.204320"; cov "1.113402";
-chr1 Cufflinks exon 3386740 3386836 1000 . . gene_id "CUFF.99"; transcript_id "CUFF.99.1"; exon_number "1"; FPKM "19.6021598701"; frac "1.000000"; conf_lo "0.000000"; conf_hi "39.204320"; cov "1.113402";
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_in3.gtf
--- a/test-data/cuffcompare_in3.gtf
+++ /dev/null
@@ -1,100 +0,0 @@
-chr1 mm9_refFlat stop_codon 3206103 3206105 0.000000 - . gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat CDS 3206106 3207049 0.000000 - 2 gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat exon 3204563 3207049 0.000000 - . gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat CDS 3411783 3411982 0.000000 - 1 gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat exon 3411783 3411982 0.000000 - . gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat CDS 3660633 3661429 0.000000 - 0 gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat start_codon 3661427 3661429 0.000000 - . gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat exon 3660633 3661579 0.000000 - . gene_id "Xkr4"; transcript_id "Xkr4";
-chr1 mm9_refFlat stop_codon 4334681 4334683 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat CDS 4334684 4340172 0.000000 - 2 gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat exon 4334224 4340172 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat CDS 4341991 4342162 0.000000 - 0 gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat exon 4341991 4342162 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat CDS 4342283 4342906 0.000000 - 0 gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat start_codon 4342904 4342906 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat exon 4342283 4342918 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat exon 4350281 4350473 0.000000 - . gene_id "Rp1"; transcript_id "Rp1";
-chr1 mm9_refFlat stop_codon 4481797 4481799 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat CDS 4481800 4482749 0.000000 - 2 gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat exon 4481009 4482749 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat CDS 4483181 4483487 0.000000 - 0 gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat start_codon 4483485 4483487 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat exon 4483181 4483547 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat exon 4483853 4483944 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat exon 4485217 4486023 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat exon 4486372 4486494 0.000000 - . gene_id "Sox17"; transcript_id "Sox17";
-chr1 mm9_refFlat stop_codon 4766545 4766547 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat CDS 4766548 4766882 0.000000 - 2 gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat exon 4763279 4766882 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat CDS 4767606 4767729 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat exon 4767606 4767729 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat CDS 4772649 4772814 0.000000 - 1 gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat exon 4772649 4772814 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat CDS 4774032 4774186 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat exon 4774032 4774186 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat CDS 4775654 4775758 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat start_codon 4775756 4775758 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat exon 4775654 4775807 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15";
-chr1 mm9_refFlat stop_codon 4764533 4764535 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat CDS 4764536 4764597 0.000000 - 2 gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4763279 4764597 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat CDS 4767606 4767729 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4767606 4767729 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat CDS 4772649 4772814 0.000000 - 1 gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4772649 4772814 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat CDS 4774032 4774186 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4774032 4774186 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat CDS 4775654 4775758 0.000000 - 0 gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat start_codon 4775756 4775758 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4775654 4775807 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup1";
-chr1 mm9_refFlat exon 4763279 4764597 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup2";
-chr1 mm9_refFlat exon 4767606 4767729 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup2";
-chr1 mm9_refFlat exon 4772649 4772814 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup2";
-chr1 mm9_refFlat exon 4775654 4775807 0.000000 - . gene_id "Mrpl15"; transcript_id "Mrpl15_dup2";
-chr1 mm9_refFlat start_codon 4797995 4797997 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4797995 4798063 0.000000 + 0 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4797974 4798063 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4798536 4798567 0.000000 + 0 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4798536 4798567 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4818665 4818730 0.000000 + 1 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4818665 4818730 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4820349 4820396 0.000000 + 1 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4820349 4820396 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4822392 4822462 0.000000 + 1 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4822392 4822462 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4827082 4827155 0.000000 + 2 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4827082 4827155 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4829468 4829569 0.000000 + 0 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4829468 4829569 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4831037 4831213 0.000000 + 0 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4831037 4831213 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat CDS 4835044 4835094 0.000000 + 0 gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat stop_codon 4835095 4835097 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat exon 4835044 4836816 0.000000 + . gene_id "Lypla1"; transcript_id "Lypla1";
-chr1 mm9_refFlat start_codon 4847995 4847997 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4847995 4848057 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4847775 4848057 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4857551 4857613 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4857551 4857613 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4868108 4868213 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4868108 4868213 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4876825 4876912 0.000000 + 2 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4876825 4876912 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4879538 4879683 0.000000 + 1 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4879538 4879683 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4880821 4880877 0.000000 + 2 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4880821 4880877 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4881996 4882150 0.000000 + 2 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4881996 4882150 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4883498 4883644 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4883498 4883644 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4885015 4885086 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4885015 4885086 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat CDS 4886437 4886442 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat stop_codon 4886443 4886445 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat exon 4886437 4887987 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1";
-chr1 mm9_refFlat start_codon 4847995 4847997 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1_dup1";
-chr1 mm9_refFlat CDS 4847995 4848057 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1_dup1";
-chr1 mm9_refFlat exon 4847775 4848057 0.000000 + . gene_id "Tcea1"; transcript_id "Tcea1_dup1";
-chr1 mm9_refFlat CDS 4857551 4857613 0.000000 + 0 gene_id "Tcea1"; transcript_id "Tcea1_dup1";
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out1.tmap
--- a/test-data/cuffcompare_out1.tmap
+++ /dev/null
@@ -1,51 +0,0 @@
-ref_gene_id ref_id class_code cuff_gene_id cuff_id FMI FPKM FPKM_conf_lo FPKM_conf_hi cov len major_iso_id ref_match_len
-- - u CUFF.1 CUFF.1.1 100 20.607936 0.000000 49.751960 1.317073 41 CUFF.1.1 -
-- - u CUFF.3 CUFF.3.1 100 27.255658 0.000000 65.800979 1.741935 31 CUFF.3.1 -
-- - u CUFF.5 CUFF.5.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.5.1 -
-- - u CUFF.7 CUFF.7.1 100 9.999117 0.000000 19.998234 0.639053 169 CUFF.7.1 -
-- - u CUFF.9 CUFF.9.1 100 17.776896 9.153835 26.399957 1.136139 404 CUFF.9.1 -
-- - u CUFF.11 CUFF.11.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.11.1 -
-Xkr4 Xkr4 c CUFF.13 CUFF.13.1 100 10.695258 0.000000 25.820637 0.683544 79 CUFF.13.1 3634
-Xkr4 Xkr4 i CUFF.15 CUFF.15.1 100 10.695258 0.000000 25.820637 0.683544 79 CUFF.15.1 3634
-Xkr4 Xkr4 i CUFF.17 CUFF.17.1 100 8.710571 0.000000 21.029179 0.556701 97 CUFF.17.1 3634
-Xkr4 Xkr4 i CUFF.19 CUFF.19.1 100 29.337687 3.097262 55.578113 1.875000 72 CUFF.19.1 3634
-Xkr4 Xkr4 i CUFF.21 CUFF.21.1 100 13.851236 0.000000 33.439842 0.885246 61 CUFF.21.1 3634
-Xkr4 Xkr4 i CUFF.23 CUFF.23.1 100 23.470150 0.000000 50.571145 1.500000 54 CUFF.23.1 3634
-Xkr4 Xkr4 i CUFF.25 CUFF.25.1 100 14.567679 5.354270 23.781089 0.931034 290 CUFF.25.1 3634
-Xkr4 Xkr4 i CUFF.27 CUFF.27.1 100 34.253732 0.000000 73.806535 2.189189 37 CUFF.27.1 3634
-- - u CUFF.29 CUFF.29.1 100 107.103219 71.402146 142.804292 6.845070 142 CUFF.29.1 -
-- - u CUFF.31 CUFF.31.1 100 122.650461 40.883487 204.417435 7.838710 31 CUFF.31.1 -
-- - u CUFF.33 CUFF.33.1 100 109.527366 26.732460 192.322273 7.000000 27 CUFF.33.1 -
-- - u CUFF.35 CUFF.35.1 100 96.747183 61.420107 132.074259 6.183206 131 CUFF.35.1 -
-- - u CUFF.37 CUFF.37.1 100 104.085013 53.596365 154.573660 6.652174 69 CUFF.37.1 -
-- - u CUFF.39 CUFF.39.1 100 23.912983 0.000000 51.525317 1.528302 53 CUFF.39.1 -
-- - u CUFF.41 CUFF.41.1 100 10.695258 0.000000 25.820637 0.683544 79 CUFF.41.1 -
-- - u CUFF.43 CUFF.43.1 100 10.561567 0.000000 25.497879 0.675000 80 CUFF.43.1 -
-- - u CUFF.45 CUFF.45.1 100 20.708956 2.186303 39.231609 1.323529 102 CUFF.45.1 -
-- - u CUFF.47 CUFF.47.1 100 20.607936 0.000000 49.751960 1.317073 41 CUFF.47.1 -
-- - u CUFF.49 CUFF.49.1 100 15.646767 0.000000 46.940300 1.000000 27 CUFF.49.1 -
-- - u CUFF.51 CUFF.51.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.51.1 -
-- - u CUFF.53 CUFF.53.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.53.1 -
-- - u CUFF.55 CUFF.55.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.55.1 -
-- - u CUFF.57 CUFF.57.1 100 15.646767 0.000000 46.940300 1.000000 27 CUFF.57.1 -
-- - u CUFF.59 CUFF.59.1 100 15.646767 0.000000 46.940300 1.000000 27 CUFF.59.1 -
-Xkr4 Xkr4 i CUFF.61 CUFF.61.1 100 45.263860 0.000000 97.530065 2.892857 28 CUFF.61.1 3634
-Xkr4 Xkr4 i CUFF.63 CUFF.63.1 100 15.646767 0.000000 46.940300 1.000000 27 CUFF.63.1 3634
-Xkr4 Xkr4 i CUFF.65 CUFF.65.1 100 15.362280 0.000000 37.087825 0.981818 55 CUFF.65.1 3634
-Xkr4 Xkr4 i CUFF.67 CUFF.67.1 100 12.998852 0.000000 31.382005 0.830769 65 CUFF.67.1 3634
-Xkr4 Xkr4 i CUFF.69 CUFF.69.1 100 10.058636 0.000000 24.283695 0.642857 84 CUFF.69.1 3634
-Xkr4 Xkr4 i CUFF.71 CUFF.71.1 100 8.621688 0.000000 20.814595 0.551020 98 CUFF.71.1 3634
-Xkr4 Xkr4 i CUFF.73 CUFF.73.1 100 15.362280 0.000000 37.087825 0.981818 55 CUFF.73.1 3634
-Xkr4 Xkr4 i CUFF.75 CUFF.75.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.75.1 3634
-Xkr4 Xkr4 i CUFF.77 CUFF.77.1 100 16.248565 0.000000 39.227507 1.038462 52 CUFF.77.1 3634
-Xkr4 Xkr4 i CUFF.79 CUFF.79.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.79.1 3634
-Xkr4 Xkr4 i CUFF.81 CUFF.81.1 100 13.201959 0.000000 31.872349 0.843750 64 CUFF.81.1 3634
-Xkr4 Xkr4 i CUFF.83 CUFF.83.1 100 13.201959 0.000000 28.446269 0.843750 96 CUFF.83.1 3634
-Xkr4 Xkr4 i CUFF.85 CUFF.85.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.85.1 3634
-Xkr4 Xkr4 i CUFF.87 CUFF.87.1 100 17.243375 0.000000 41.629191 1.102041 49 CUFF.87.1 3634
-Xkr4 Xkr4 i CUFF.89 CUFF.89.1 100 16.567165 0.000000 39.996674 1.058824 51 CUFF.89.1 3634
-Xkr4 Xkr4 i CUFF.91 CUFF.91.1 100 31.293533 0.000000 75.549272 2.000000 27 CUFF.91.1 3634
-Xkr4 Xkr4 i CUFF.93 CUFF.93.1 100 21.664754 0.000000 52.303342 1.384615 39 CUFF.93.1 3634
-Xkr4 Xkr4 i CUFF.95 CUFF.95.1 100 46.940300 0.000000 101.142289 3.000000 27 CUFF.95.1 3634
-Xkr4 Xkr4 i CUFF.97 CUFF.97.1 100 21.481154 0.000000 46.285454 1.372881 59 CUFF.97.1 3634
-Xkr4 Xkr4 i CUFF.99 CUFF.99.1 100 14.567679 0.000000 35.169489 0.931034 58 CUFF.99.1 3634
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out2.refmap
--- a/test-data/cuffcompare_out2.refmap
+++ /dev/null
@@ -1,2 +0,0 @@
-ref_gene_id ref_id class_code cuff_id_list
-Xkr4 Xkr4 c CUFF.13|CUFF.13.1
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out3.tmap
--- a/test-data/cuffcompare_out3.tmap
+++ /dev/null
@@ -1,51 +0,0 @@
-ref_gene_id ref_id class_code cuff_gene_id cuff_id FMI FPKM FPKM_conf_lo FPKM_conf_hi cov len major_iso_id ref_match_len
-- - u CUFF.1 CUFF.1.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.1.1 -
-- - u CUFF.3 CUFF.3.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.3.1 -
-- - u CUFF.5 CUFF.5.1 100 21.226627 0.000000 59.889707 1.205672 27 CUFF.5.1 -
-- - u CUFF.7 CUFF.7.1 100 29.709524 19.806349 39.612698 1.687500 576 CUFF.7.1 -
-- - u CUFF.9 CUFF.9.1 100 34.072933 23.364686 44.781179 1.935341 565 CUFF.9.1 -
-- - u CUFF.11 CUFF.11.1 100 32.531777 24.582998 40.480555 1.847804 979 CUFF.11.1 -
-- - u CUFF.13 CUFF.13.1 100 16.582060 0.000000 35.729373 0.941860 86 CUFF.13.1 -
-- - u CUFF.15 CUFF.15.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.15.1 -
-- - u CUFF.17 CUFF.17.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.17.1 -
-- - u CUFF.19 CUFF.19.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.19.1 -
-- - u CUFF.21 CUFF.21.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.21.1 -
-- - u CUFF.23 CUFF.23.1 100 16.205195 0.000000 34.917342 0.920455 88 CUFF.23.1 -
-- - u CUFF.25 CUFF.25.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.25.1 -
-- - u CUFF.26 CUFF.26.1 100 29.709524 0.000000 71.725135 1.687500 32 CUFF.26.1 -
-- - u CUFF.29 CUFF.29.1 100 13.581496 0.000000 32.788633 0.771429 70 CUFF.29.1 -
-- - u CUFF.31 CUFF.31.1 100 22.635827 0.000000 45.271655 1.285714 84 CUFF.31.1 -
-Xkr4 Xkr4 i CUFF.33 CUFF.33.1 100 23.767619 0.000000 57.380108 1.350000 40 CUFF.33.1 3634
-Xkr4 Xkr4 i CUFF.35 CUFF.35.1 100 11.317914 0.000000 27.323861 0.642857 84 CUFF.35.1 3634
-Xkr4 Xkr4 i CUFF.37 CUFF.37.1 100 11.500461 0.000000 24.780049 0.653226 124 CUFF.37.1 3634
-Xkr4 Xkr4 i CUFF.39 CUFF.39.1 100 52.816931 0.000000 113.804669 3.000000 27 CUFF.39.1 3634
-Xkr4 Xkr4 i CUFF.41 CUFF.41.1 100 43.213852 0.000000 93.112911 2.454545 33 CUFF.41.1 3634
-Xkr4 Xkr4 i CUFF.43 CUFF.43.1 100 23.474191 0.000000 46.948383 1.333333 81 CUFF.43.1 3634
-Xkr4 Xkr4 i CUFF.45 CUFF.45.1 100 20.667495 0.000000 49.895746 1.173913 46 CUFF.45.1 3634
-Xkr4 Xkr4 i CUFF.47 CUFF.47.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.47.1 3634
-Xkr4 Xkr4 i CUFF.49 CUFF.49.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.49.1 3634
-Xkr4 Xkr4 i CUFF.51 CUFF.51.1 100 14.948188 7.228977 22.667399 0.849057 477 CUFF.51.1 3634
-Xkr4 Xkr4 i CUFF.53 CUFF.53.1 100 52.816931 0.000000 113.804669 3.000000 27 CUFF.53.1 3634
-Xkr4 Xkr4 i CUFF.55 CUFF.55.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.55.1 3634
-Xkr4 Xkr4 i CUFF.57 CUFF.57.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.57.1 3634
-Xkr4 Xkr4 i CUFF.59 CUFF.59.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.59.1 3634
-Xkr4 Xkr4 i CUFF.61 CUFF.61.1 100 13.204233 0.000000 31.877838 0.750000 72 CUFF.61.1 3634
-Xkr4 Xkr4 i CUFF.63 CUFF.63.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.63.1 3634
-Xkr4 Xkr4 i CUFF.65 CUFF.65.1 100 31.170648 0.000000 62.341295 1.770492 61 CUFF.65.1 3634
-Xkr4 Xkr4 i CUFF.67 CUFF.67.1 100 15.681351 3.378764 27.983938 0.890700 197 CUFF.67.1 3634
-Xkr4 Xkr4 i CUFF.69 CUFF.69.1 100 18.799247 8.750627 28.847866 1.067797 354 CUFF.69.1 3634
-Xkr4 Xkr4 i CUFF.71 CUFF.71.1 100 22.635827 0.000000 54.647722 1.285714 42 CUFF.71.1 3634
-Xkr4 Xkr4 i CUFF.73 CUFF.73.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.73.1 3634
-Xkr4 Xkr4 i CUFF.75 CUFF.75.1 100 52.816931 0.000000 113.804669 3.000000 27 CUFF.75.1 3634
-Xkr4 Xkr4 i CUFF.77 CUFF.77.1 100 17.605644 0.000000 52.816931 1.000000 27 CUFF.77.1 3634
-Xkr4 Xkr4 i CUFF.79 CUFF.79.1 100 13.390208 0.000000 32.326821 0.760563 71 CUFF.79.1 3634
-Xkr4 Xkr4 i CUFF.81 CUFF.81.1 100 11.211141 1.183592 21.238690 0.636792 212 CUFF.81.1 3634
-Xkr4 Xkr4 i CUFF.83 CUFF.83.1 100 21.126772 0.000000 51.004540 1.200000 45 CUFF.83.1 3634
-Xkr4 Xkr4 i CUFF.85 CUFF.85.1 100 19.014095 0.000000 38.028190 1.080000 100 CUFF.85.1 3634
-Xkr4 Xkr4 i CUFF.87 CUFF.87.1 100 24.170460 0.000000 52.080103 1.372881 59 CUFF.87.1 3634
-Xkr4 Xkr4 i CUFF.89 CUFF.89.1 100 29.709524 0.000000 64.015126 1.687500 48 CUFF.89.1 3634
-Xkr4 Xkr4 i CUFF.91 CUFF.91.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.91.1 3634
-Xkr4 Xkr4 i CUFF.93 CUFF.93.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.93.1 3634
-Xkr4 Xkr4 i CUFF.95 CUFF.95.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.95.1 3634
-Xkr4 Xkr4 i CUFF.97 CUFF.97.1 100 35.211287 0.000000 85.007567 2.000000 27 CUFF.97.1 3634
-Xkr4 Xkr4 i CUFF.99 CUFF.99.1 100 19.602160 0.000000 39.204320 1.113402 97 CUFF.99.1 3634
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out4.refmap
--- a/test-data/cuffcompare_out4.refmap
+++ /dev/null
@@ -1,1 +0,0 @@
-ref_gene_id ref_id class_code cuff_id_list
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out5.gtf
--- a/test-data/cuffcompare_out5.gtf
+++ /dev/null
@@ -1,90 +0,0 @@
-chr1 Cufflinks exon 3204755 3204833 . - . gene_id "XLOC_000001"; transcript_id "TCONS_00000001"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.13.1"; nearest_ref "Xkr4"; class_code "c"; tss_id "TSS1";
-chr1 Cufflinks exon 3111450 3111490 . . . gene_id "XLOC_000002"; transcript_id "TCONS_00000002"; exon_number "1"; oId "CUFF.1.1"; class_code "u"; tss_id "TSS2";
-chr1 Cufflinks exon 3111546 3111576 . . . gene_id "XLOC_000003"; transcript_id "TCONS_00000003"; exon_number "1"; oId "CUFF.3.1"; class_code "u"; tss_id "TSS3";
-chr1 Cufflinks exon 3174766 3174792 . . . gene_id "XLOC_000004"; transcript_id "TCONS_00000051"; exon_number "1"; oId "CUFF.1.1"; class_code "u"; tss_id "TSS4";
-chr1 Cufflinks exon 3187402 3187428 . . . gene_id "XLOC_000005"; transcript_id "TCONS_00000052"; exon_number "1"; oId "CUFF.3.1"; class_code "u"; tss_id "TSS5";
-chr1 Cufflinks exon 3188522 3188548 . . . gene_id "XLOC_000006"; transcript_id "TCONS_00000053"; exon_number "1"; oId "CUFF.5.1"; class_code "u"; tss_id "TSS6";
-chr1 Cufflinks exon 3189811 3190789 . . . gene_id "XLOC_000007"; transcript_id "TCONS_00000054"; exon_number "1"; oId "CUFF.11.1"; class_code "u"; tss_id "TSS7";
-chr1 Cufflinks exon 3190859 3191434 . . . gene_id "XLOC_000008"; transcript_id "TCONS_00000055"; exon_number "1"; oId "CUFF.7.1"; class_code "u"; tss_id "TSS10";
-chr1 Cufflinks exon 3191513 3192077 . . . gene_id "XLOC_000009"; transcript_id "TCONS_00000056"; exon_number "1"; oId "CUFF.9.1"; class_code "u"; tss_id "TSS11";
-chr1 Cufflinks exon 3192251 3192336 . . . gene_id "XLOC_000010"; transcript_id "TCONS_00000057"; exon_number "1"; oId "CUFF.13.1"; class_code "u"; tss_id "TSS13";
-chr1 Cufflinks exon 3192442 3192494 . . . gene_id "XLOC_000011"; transcript_id "TCONS_00000009"; exon_number "1"; oId "CUFF.39.1"; class_code "u"; tss_id "TSS14";
-chr1 Cufflinks exon 3192551 3192629 . . . gene_id "XLOC_000012"; transcript_id "TCONS_00000010"; exon_number "1"; oId "CUFF.41.1"; class_code "u"; tss_id "TSS15";
-chr1 Cufflinks exon 3192650 3192676 . . . gene_id "XLOC_000013"; transcript_id "TCONS_00000058"; exon_number "1"; oId "CUFF.15.1"; class_code "u"; tss_id "TSS16";
-chr1 Cufflinks exon 3192732 3192811 . . . gene_id "XLOC_000014"; transcript_id "TCONS_00000011"; exon_number "1"; oId "CUFF.43.1"; class_code "u"; tss_id "TSS17";
-chr1 Cufflinks exon 3192941 3193042 . . . gene_id "XLOC_000015"; transcript_id "TCONS_00000012"; exon_number "1"; oId "CUFF.45.1"; class_code "u"; tss_id "TSS18";
-chr1 Cufflinks exon 3194186 3194226 . . . gene_id "XLOC_000016"; transcript_id "TCONS_00000013"; exon_number "1"; oId "CUFF.47.1"; class_code "u"; tss_id "TSS19";
-chr1 Cufflinks exon 3194303 3194329 . . . gene_id "XLOC_000017"; transcript_id "TCONS_00000014"; exon_number "1"; oId "CUFF.49.1"; class_code "u"; tss_id "TSS20";
-chr1 Cufflinks exon 3194707 3194733 . . . gene_id "XLOC_000018"; transcript_id "TCONS_00000059"; exon_number "1"; oId "CUFF.17.1"; class_code "u"; tss_id "TSS21";
-chr1 Cufflinks exon 3195084 3195110 . . . gene_id "XLOC_000019"; transcript_id "TCONS_00000015"; exon_number "1"; oId "CUFF.51.1"; class_code "u"; tss_id "TSS22";
-chr1 Cufflinks exon 3195451 3195477 . . . gene_id "XLOC_000020"; transcript_id "TCONS_00000016"; exon_number "1"; oId "CUFF.53.1"; class_code "u"; tss_id "TSS23";
-chr1 Cufflinks exon 3197090 3197116 . . . gene_id "XLOC_000021"; transcript_id "TCONS_00000017"; exon_number "1"; oId "CUFF.55.1"; class_code "u"; tss_id "TSS24";
-chr1 Cufflinks exon 3197247 3197273 . . . gene_id "XLOC_000022"; transcript_id "TCONS_00000018"; exon_number "1"; oId "CUFF.57.1"; class_code "u"; tss_id "TSS25";
-chr1 Cufflinks exon 3197347 3197373 . . . gene_id "XLOC_000023"; transcript_id "TCONS_00000019"; exon_number "1"; oId "CUFF.59.1"; class_code "u"; tss_id "TSS26";
-chr1 Cufflinks exon 3197426 3197452 . . . gene_id "XLOC_000024"; transcript_id "TCONS_00000060"; exon_number "1"; oId "CUFF.19.1"; class_code "u"; tss_id "TSS27";
-chr1 Cufflinks exon 3200023 3200191 . . . gene_id "XLOC_000025"; transcript_id "TCONS_00000020"; exon_number "1"; oId "CUFF.7.1"; class_code "u"; tss_id "TSS28";
-chr1 Cufflinks exon 3200326 3200352 . . . gene_id "XLOC_000026"; transcript_id "TCONS_00000021"; exon_number "1"; oId "CUFF.5.1"; class_code "u"; tss_id "TSS29";
-chr1 Cufflinks exon 3200431 3200457 . . . gene_id "XLOC_000027"; transcript_id "TCONS_00000062"; exon_number "1"; oId "CUFF.21.1"; class_code "u"; tss_id "TSS30";
-chr1 Cufflinks exon 3201008 3201039 . . . gene_id "XLOC_000028"; transcript_id "TCONS_00000063"; exon_number "1"; oId "CUFF.26.1"; class_code "u"; tss_id "TSS31";
-chr1 Cufflinks exon 3201078 3201481 . . . gene_id "XLOC_000029"; transcript_id "TCONS_00000022"; exon_number "1"; oId "CUFF.9.1"; class_code "u"; tss_id "TSS32";
-chr1 Cufflinks exon 3201597 3201666 . . . gene_id "XLOC_000030"; transcript_id "TCONS_00000065"; exon_number "1"; oId "CUFF.29.1"; class_code "u"; tss_id "TSS33";
-chr1 Cufflinks exon 3201673 3201699 . . . gene_id "XLOC_000031"; transcript_id "TCONS_00000023"; exon_number "1"; oId "CUFF.11.1"; class_code "u"; tss_id "TSS34";
-chr1 Cufflinks exon 3201726 3201809 . . . gene_id "XLOC_000032"; transcript_id "TCONS_00000066"; exon_number "1"; oId "CUFF.31.1"; class_code "u"; tss_id "TSS35";
-chr1 Cufflinks exon 3211522 3211561 . . . gene_id "XLOC_000033"; transcript_id "TCONS_00000067"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.33.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS36";
-chr1 Cufflinks exon 3212214 3212292 . . . gene_id "XLOC_000034"; transcript_id "TCONS_00000024"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.15.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS37";
-chr1 Cufflinks exon 3212368 3212439 . . . gene_id "XLOC_000035"; transcript_id "TCONS_00000025"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.19.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS38";
-chr1 Cufflinks exon 3212718 3212801 . . . gene_id "XLOC_000036"; transcript_id "TCONS_00000068"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.35.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS39";
-chr1 Cufflinks exon 3213096 3213192 . . . gene_id "XLOC_000037"; transcript_id "TCONS_00000026"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.17.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS40";
-chr1 Cufflinks exon 3213119 3213242 . . . gene_id "XLOC_000037"; transcript_id "TCONS_00000069"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.37.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS40";
-chr1 Cufflinks exon 3240607 3240633 . . . gene_id "XLOC_000038"; transcript_id "TCONS_00000070"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.39.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS41";
-chr1 Cufflinks exon 3242480 3242512 . . . gene_id "XLOC_000039"; transcript_id "TCONS_00000071"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.41.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS42";
-chr1 Cufflinks exon 3242634 3242923 . . . gene_id "XLOC_000040"; transcript_id "TCONS_00000027"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.25.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS43";
-chr1 Cufflinks exon 3242925 3243005 . . . gene_id "XLOC_000041"; transcript_id "TCONS_00000072"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.43.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS44";
-chr1 Cufflinks exon 3243019 3243079 . . . gene_id "XLOC_000042"; transcript_id "TCONS_00000028"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.21.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS45";
-chr1 Cufflinks exon 3243109 3243154 . . . gene_id "XLOC_000043"; transcript_id "TCONS_00000073"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.45.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS46";
-chr1 Cufflinks exon 3243348 3243401 . . . gene_id "XLOC_000044"; transcript_id "TCONS_00000029"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.23.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS47";
-chr1 Cufflinks exon 3254080 3254106 . . . gene_id "XLOC_000045"; transcript_id "TCONS_00000074"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.47.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS48";
-chr1 Cufflinks exon 3256975 3257011 . . . gene_id "XLOC_000046"; transcript_id "TCONS_00000030"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.27.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS49";
-chr1 Cufflinks exon 3277156 3277182 . . . gene_id "XLOC_000047"; transcript_id "TCONS_00000075"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.49.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS50";
-chr1 Cufflinks exon 3277191 3277218 . . . gene_id "XLOC_000048"; transcript_id "TCONS_00000031"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.61.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS51";
-chr1 Cufflinks exon 3277914 3278390 . . . gene_id "XLOC_000049"; transcript_id "TCONS_00000076"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.51.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS52";
-chr1 Cufflinks exon 3280118 3280144 . . . gene_id "XLOC_000050"; transcript_id "TCONS_00000077"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.53.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS54";
-chr1 Cufflinks exon 3280499 3280525 . . . gene_id "XLOC_000051"; transcript_id "TCONS_00000078"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.55.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS55";
-chr1 Cufflinks exon 3280687 3280741 . . . gene_id "XLOC_000052"; transcript_id "TCONS_00000033"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.65.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS56";
-chr1 Cufflinks exon 3282505 3282531 . . . gene_id "XLOC_000053"; transcript_id "TCONS_00000079"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.57.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS57";
-chr1 Cufflinks exon 3282651 3282677 . . . gene_id "XLOC_000054"; transcript_id "TCONS_00000080"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.59.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS58";
-chr1 Cufflinks exon 3282761 3282832 . . . gene_id "XLOC_000055"; transcript_id "TCONS_00000081"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.61.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS59";
-chr1 Cufflinks exon 3284967 3284993 . . . gene_id "XLOC_000056"; transcript_id "TCONS_00000082"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.63.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS60";
-chr1 Cufflinks exon 3290489 3290553 . . . gene_id "XLOC_000057"; transcript_id "TCONS_00000034"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.67.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS61";
-chr1 Cufflinks exon 3290799 3290859 . . . gene_id "XLOC_000058"; transcript_id "TCONS_00000083"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.65.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS62";
-chr1 Cufflinks exon 3290920 3291273 . . . gene_id "XLOC_000059"; transcript_id "TCONS_00000084"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.69.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS63";
-chr1 Cufflinks exon 3299444 3299640 . . . gene_id "XLOC_000060"; transcript_id "TCONS_00000085"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.67.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS65";
-chr1 Cufflinks exon 3299610 3299664 . . . gene_id "XLOC_000060"; transcript_id "TCONS_00000037"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.73.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS66";
-chr1 Cufflinks exon 3299692 3299733 . . . gene_id "XLOC_000061"; transcript_id "TCONS_00000086"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.71.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS67";
-chr1 Cufflinks exon 3300052 3300078 . . . gene_id "XLOC_000062"; transcript_id "TCONS_00000038"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.75.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS68";
-chr1 Cufflinks exon 3307749 3307775 . . . gene_id "XLOC_000063"; transcript_id "TCONS_00000087"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.73.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS69";
-chr1 Cufflinks exon 3318621 3318647 . . . gene_id "XLOC_000064"; transcript_id "TCONS_00000088"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.75.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS70";
-chr1 Cufflinks exon 3319000 3319051 . . . gene_id "XLOC_000065"; transcript_id "TCONS_00000039"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.77.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS71";
-chr1 Cufflinks exon 3330528 3330554 . . . gene_id "XLOC_000066"; transcript_id "TCONS_00000089"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.77.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS72";
-chr1 Cufflinks exon 3351241 3351311 . . . gene_id "XLOC_000067"; transcript_id "TCONS_00000090"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.79.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS73";
-chr1 Cufflinks exon 3355888 3355914 . . . gene_id "XLOC_000068"; transcript_id "TCONS_00000040"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.79.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS74";
-chr1 Cufflinks exon 3355908 3356119 . . . gene_id "XLOC_000068"; transcript_id "TCONS_00000091"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.81.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS74";
-chr1 Cufflinks exon 3356181 3356225 . . . gene_id "XLOC_000069"; transcript_id "TCONS_00000092"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.83.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS75";
-chr1 Cufflinks exon 3363077 3363176 . . . gene_id "XLOC_000070"; transcript_id "TCONS_00000093"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.85.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS76";
-chr1 Cufflinks exon 3363215 3363278 . . . gene_id "XLOC_000071"; transcript_id "TCONS_00000041"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.81.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS77";
-chr1 Cufflinks exon 3363388 3363446 . . . gene_id "XLOC_000072"; transcript_id "TCONS_00000094"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.87.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS78";
-chr1 Cufflinks exon 3363754 3363849 . . . gene_id "XLOC_000073"; transcript_id "TCONS_00000042"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.83.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS79";
-chr1 Cufflinks exon 3364872 3364919 . . . gene_id "XLOC_000074"; transcript_id "TCONS_00000095"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.89.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS80";
-chr1 Cufflinks exon 3367136 3367162 . . . gene_id "XLOC_000075"; transcript_id "TCONS_00000043"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.85.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS81";
-chr1 Cufflinks exon 3367211 3367237 . . . gene_id "XLOC_000076"; transcript_id "TCONS_00000096"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.91.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS82";
-chr1 Cufflinks exon 3367334 3367382 . . . gene_id "XLOC_000077"; transcript_id "TCONS_00000044"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.87.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS83";
-chr1 Cufflinks exon 3369581 3369607 . . . gene_id "XLOC_000078"; transcript_id "TCONS_00000097"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.93.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS84";
-chr1 Cufflinks exon 3375002 3375028 . . . gene_id "XLOC_000079"; transcript_id "TCONS_00000098"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.95.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS85";
-chr1 Cufflinks exon 3377212 3377262 . . . gene_id "XLOC_000080"; transcript_id "TCONS_00000045"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.89.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS86";
-chr1 Cufflinks exon 3379889 3379915 . . . gene_id "XLOC_000081"; transcript_id "TCONS_00000099"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.97.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS87";
-chr1 Cufflinks exon 3386740 3386836 . . . gene_id "XLOC_000082"; transcript_id "TCONS_00000100"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.99.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS88";
-chr1 Cufflinks exon 3391326 3391352 . . . gene_id "XLOC_000083"; transcript_id "TCONS_00000046"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.91.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS89";
-chr1 Cufflinks exon 3435842 3435880 . . . gene_id "XLOC_000084"; transcript_id "TCONS_00000047"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.93.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS90";
-chr1 Cufflinks exon 3447762 3447788 . . . gene_id "XLOC_000085"; transcript_id "TCONS_00000048"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.95.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS91";
-chr1 Cufflinks exon 3450907 3450965 . . . gene_id "XLOC_000086"; transcript_id "TCONS_00000049"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.97.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS92";
-chr1 Cufflinks exon 3451052 3451109 . . . gene_id "XLOC_000087"; transcript_id "TCONS_00000050"; exon_number "1"; gene_name "Xkr4"; oId "CUFF.99.1"; nearest_ref "Xkr4"; class_code "i"; tss_id "TSS93";
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out6.tracking
--- a/test-data/cuffcompare_out6.tracking
+++ /dev/null
@@ -1,100 +0,0 @@
-TCONS_00000001 XLOC_000001 Xkr4|Xkr4 c q1:CUFF.13|CUFF.13.1|100|10.695258|0.000000|25.820637|0.683544|- -
-TCONS_00000002 XLOC_000002 - u q1:CUFF.1|CUFF.1.1|100|20.607936|0.000000|49.751960|1.317073|- -
-TCONS_00000003 XLOC_000003 - u q1:CUFF.3|CUFF.3.1|100|27.255658|0.000000|65.800979|1.741935|- -
-TCONS_00000004 XLOC_000007 - u q1:CUFF.29|CUFF.29.1|100|107.103219|71.402146|142.804292|6.845070|- -
-TCONS_00000005 XLOC_000007 - u q1:CUFF.31|CUFF.31.1|100|122.650461|40.883487|204.417435|7.838710|- -
-TCONS_00000006 XLOC_000007 - u q1:CUFF.33|CUFF.33.1|100|109.527366|26.732460|192.322273|7.000000|- -
-TCONS_00000007 XLOC_000009 - u q1:CUFF.35|CUFF.35.1|100|96.747183|61.420107|132.074259|6.183206|- -
-TCONS_00000008 XLOC_000009 - u q1:CUFF.37|CUFF.37.1|100|104.085013|53.596365|154.573660|6.652174|- -
-TCONS_00000009 XLOC_000011 - u q1:CUFF.39|CUFF.39.1|100|23.912983|0.000000|51.525317|1.528302|- -
-TCONS_00000010 XLOC_000012 - u q1:CUFF.41|CUFF.41.1|100|10.695258|0.000000|25.820637|0.683544|- -
-TCONS_00000011 XLOC_000014 - u q1:CUFF.43|CUFF.43.1|100|10.561567|0.000000|25.497879|0.675000|- -
-TCONS_00000012 XLOC_000015 - u q1:CUFF.45|CUFF.45.1|100|20.708956|2.186303|39.231609|1.323529|- -
-TCONS_00000013 XLOC_000016 - u q1:CUFF.47|CUFF.47.1|100|20.607936|0.000000|49.751960|1.317073|- -
-TCONS_00000014 XLOC_000017 - u q1:CUFF.49|CUFF.49.1|100|15.646767|0.000000|46.940300|1.000000|- -
-TCONS_00000015 XLOC_000019 - u q1:CUFF.51|CUFF.51.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000016 XLOC_000020 - u q1:CUFF.53|CUFF.53.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000017 XLOC_000021 - u q1:CUFF.55|CUFF.55.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000018 XLOC_000022 - u q1:CUFF.57|CUFF.57.1|100|15.646767|0.000000|46.940300|1.000000|- -
-TCONS_00000019 XLOC_000023 - u q1:CUFF.59|CUFF.59.1|100|15.646767|0.000000|46.940300|1.000000|- -
-TCONS_00000020 XLOC_000025 - u q1:CUFF.7|CUFF.7.1|100|9.999117|0.000000|19.998234|0.639053|- -
-TCONS_00000021 XLOC_000026 - u q1:CUFF.5|CUFF.5.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000022 XLOC_000029 - u q1:CUFF.9|CUFF.9.1|100|17.776896|9.153835|26.399957|1.136139|- -
-TCONS_00000023 XLOC_000031 - u q1:CUFF.11|CUFF.11.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000024 XLOC_000034 Xkr4|Xkr4 i q1:CUFF.15|CUFF.15.1|100|10.695258|0.000000|25.820637|0.683544|- -
-TCONS_00000025 XLOC_000035 Xkr4|Xkr4 i q1:CUFF.19|CUFF.19.1|100|29.337687|3.097262|55.578113|1.875000|- -
-TCONS_00000026 XLOC_000037 Xkr4|Xkr4 i q1:CUFF.17|CUFF.17.1|100|8.710571|0.000000|21.029179|0.556701|- -
-TCONS_00000027 XLOC_000040 Xkr4|Xkr4 i q1:CUFF.25|CUFF.25.1|100|14.567679|5.354270|23.781089|0.931034|- -
-TCONS_00000028 XLOC_000042 Xkr4|Xkr4 i q1:CUFF.21|CUFF.21.1|100|13.851236|0.000000|33.439842|0.885246|- -
-TCONS_00000029 XLOC_000044 Xkr4|Xkr4 i q1:CUFF.23|CUFF.23.1|100|23.470150|0.000000|50.571145|1.500000|- -
-TCONS_00000030 XLOC_000046 Xkr4|Xkr4 i q1:CUFF.27|CUFF.27.1|100|34.253732|0.000000|73.806535|2.189189|- -
-TCONS_00000031 XLOC_000048 Xkr4|Xkr4 i q1:CUFF.61|CUFF.61.1|100|45.263860|0.000000|97.530065|2.892857|- -
-TCONS_00000032 XLOC_000049 Xkr4|Xkr4 i q1:CUFF.63|CUFF.63.1|100|15.646767|0.000000|46.940300|1.000000|- -
-TCONS_00000033 XLOC_000052 Xkr4|Xkr4 i q1:CUFF.65|CUFF.65.1|100|15.362280|0.000000|37.087825|0.981818|- -
-TCONS_00000034 XLOC_000057 Xkr4|Xkr4 i q1:CUFF.67|CUFF.67.1|100|12.998852|0.000000|31.382005|0.830769|- -
-TCONS_00000035 XLOC_000059 Xkr4|Xkr4 i q1:CUFF.69|CUFF.69.1|100|10.058636|0.000000|24.283695|0.642857|- -
-TCONS_00000036 XLOC_000059 Xkr4|Xkr4 i q1:CUFF.71|CUFF.71.1|100|8.621688|0.000000|20.814595|0.551020|- -
-TCONS_00000037 XLOC_000060 Xkr4|Xkr4 i q1:CUFF.73|CUFF.73.1|100|15.362280|0.000000|37.087825|0.981818|- -
-TCONS_00000038 XLOC_000062 Xkr4|Xkr4 i q1:CUFF.75|CUFF.75.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000039 XLOC_000065 Xkr4|Xkr4 i q1:CUFF.77|CUFF.77.1|100|16.248565|0.000000|39.227507|1.038462|- -
-TCONS_00000040 XLOC_000068 Xkr4|Xkr4 i q1:CUFF.79|CUFF.79.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000041 XLOC_000071 Xkr4|Xkr4 i q1:CUFF.81|CUFF.81.1|100|13.201959|0.000000|31.872349|0.843750|- -
-TCONS_00000042 XLOC_000073 Xkr4|Xkr4 i q1:CUFF.83|CUFF.83.1|100|13.201959|0.000000|28.446269|0.843750|- -
-TCONS_00000043 XLOC_000075 Xkr4|Xkr4 i q1:CUFF.85|CUFF.85.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000044 XLOC_000077 Xkr4|Xkr4 i q1:CUFF.87|CUFF.87.1|100|17.243375|0.000000|41.629191|1.102041|- -
-TCONS_00000045 XLOC_000080 Xkr4|Xkr4 i q1:CUFF.89|CUFF.89.1|100|16.567165|0.000000|39.996674|1.058824|- -
-TCONS_00000046 XLOC_000083 Xkr4|Xkr4 i q1:CUFF.91|CUFF.91.1|100|31.293533|0.000000|75.549272|2.000000|- -
-TCONS_00000047 XLOC_000084 Xkr4|Xkr4 i q1:CUFF.93|CUFF.93.1|100|21.664754|0.000000|52.303342|1.384615|- -
-TCONS_00000048 XLOC_000085 Xkr4|Xkr4 i q1:CUFF.95|CUFF.95.1|100|46.940300|0.000000|101.142289|3.000000|- -
-TCONS_00000049 XLOC_000086 Xkr4|Xkr4 i q1:CUFF.97|CUFF.97.1|100|21.481154|0.000000|46.285454|1.372881|- -
-TCONS_00000050 XLOC_000087 Xkr4|Xkr4 i q1:CUFF.99|CUFF.99.1|100|14.567679|0.000000|35.169489|0.931034|- -
-TCONS_00000051 XLOC_000004 - u - q2:CUFF.1|CUFF.1.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000052 XLOC_000005 - u - q2:CUFF.3|CUFF.3.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000053 XLOC_000006 - u - q2:CUFF.5|CUFF.5.1|100|21.226627|0.000000|59.889707|1.205672|-
-TCONS_00000054 XLOC_000007 - u - q2:CUFF.11|CUFF.11.1|100|32.531777|24.582998|40.480555|1.847804|-
-TCONS_00000055 XLOC_000008 - u - q2:CUFF.7|CUFF.7.1|100|29.709524|19.806349|39.612698|1.687500|-
-TCONS_00000056 XLOC_000009 - u - q2:CUFF.9|CUFF.9.1|100|34.072933|23.364686|44.781179|1.935341|-
-TCONS_00000057 XLOC_000010 - u - q2:CUFF.13|CUFF.13.1|100|16.582060|0.000000|35.729373|0.941860|-
-TCONS_00000058 XLOC_000013 - u - q2:CUFF.15|CUFF.15.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000059 XLOC_000018 - u - q2:CUFF.17|CUFF.17.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000060 XLOC_000024 - u - q2:CUFF.19|CUFF.19.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000061 XLOC_000025 - u - q2:CUFF.23|CUFF.23.1|100|16.205195|0.000000|34.917342|0.920455|-
-TCONS_00000062 XLOC_000027 - u - q2:CUFF.21|CUFF.21.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000063 XLOC_000028 - u - q2:CUFF.26|CUFF.26.1|100|29.709524|0.000000|71.725135|1.687500|-
-TCONS_00000064 XLOC_000029 - u - q2:CUFF.25|CUFF.25.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000065 XLOC_000030 - u - q2:CUFF.29|CUFF.29.1|100|13.581496|0.000000|32.788633|0.771429|-
-TCONS_00000066 XLOC_000032 - u - q2:CUFF.31|CUFF.31.1|100|22.635827|0.000000|45.271655|1.285714|-
-TCONS_00000067 XLOC_000033 Xkr4|Xkr4 i - q2:CUFF.33|CUFF.33.1|100|23.767619|0.000000|57.380108|1.350000|-
-TCONS_00000068 XLOC_000036 Xkr4|Xkr4 i - q2:CUFF.35|CUFF.35.1|100|11.317914|0.000000|27.323861|0.642857|-
-TCONS_00000069 XLOC_000037 Xkr4|Xkr4 i - q2:CUFF.37|CUFF.37.1|100|11.500461|0.000000|24.780049|0.653226|-
-TCONS_00000070 XLOC_000038 Xkr4|Xkr4 i - q2:CUFF.39|CUFF.39.1|100|52.816931|0.000000|113.804669|3.000000|-
-TCONS_00000071 XLOC_000039 Xkr4|Xkr4 i - q2:CUFF.41|CUFF.41.1|100|43.213852|0.000000|93.112911|2.454545|-
-TCONS_00000072 XLOC_000041 Xkr4|Xkr4 i - q2:CUFF.43|CUFF.43.1|100|23.474191|0.000000|46.948383|1.333333|-
-TCONS_00000073 XLOC_000043 Xkr4|Xkr4 i - q2:CUFF.45|CUFF.45.1|100|20.667495|0.000000|49.895746|1.173913|-
-TCONS_00000074 XLOC_000045 Xkr4|Xkr4 i - q2:CUFF.47|CUFF.47.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000075 XLOC_000047 Xkr4|Xkr4 i - q2:CUFF.49|CUFF.49.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000076 XLOC_000049 Xkr4|Xkr4 i - q2:CUFF.51|CUFF.51.1|100|14.948188|7.228977|22.667399|0.849057|-
-TCONS_00000077 XLOC_000050 Xkr4|Xkr4 i - q2:CUFF.53|CUFF.53.1|100|52.816931|0.000000|113.804669|3.000000|-
-TCONS_00000078 XLOC_000051 Xkr4|Xkr4 i - q2:CUFF.55|CUFF.55.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000079 XLOC_000053 Xkr4|Xkr4 i - q2:CUFF.57|CUFF.57.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000080 XLOC_000054 Xkr4|Xkr4 i - q2:CUFF.59|CUFF.59.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000081 XLOC_000055 Xkr4|Xkr4 i - q2:CUFF.61|CUFF.61.1|100|13.204233|0.000000|31.877838|0.750000|-
-TCONS_00000082 XLOC_000056 Xkr4|Xkr4 i - q2:CUFF.63|CUFF.63.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000083 XLOC_000058 Xkr4|Xkr4 i - q2:CUFF.65|CUFF.65.1|100|31.170648|0.000000|62.341295|1.770492|-
-TCONS_00000084 XLOC_000059 Xkr4|Xkr4 i - q2:CUFF.69|CUFF.69.1|100|18.799247|8.750627|28.847866|1.067797|-
-TCONS_00000085 XLOC_000060 Xkr4|Xkr4 i - q2:CUFF.67|CUFF.67.1|100|15.681351|3.378764|27.983938|0.890700|-
-TCONS_00000086 XLOC_000061 Xkr4|Xkr4 i - q2:CUFF.71|CUFF.71.1|100|22.635827|0.000000|54.647722|1.285714|-
-TCONS_00000087 XLOC_000063 Xkr4|Xkr4 i - q2:CUFF.73|CUFF.73.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000088 XLOC_000064 Xkr4|Xkr4 i - q2:CUFF.75|CUFF.75.1|100|52.816931|0.000000|113.804669|3.000000|-
-TCONS_00000089 XLOC_000066 Xkr4|Xkr4 i - q2:CUFF.77|CUFF.77.1|100|17.605644|0.000000|52.816931|1.000000|-
-TCONS_00000090 XLOC_000067 Xkr4|Xkr4 i - q2:CUFF.79|CUFF.79.1|100|13.390208|0.000000|32.326821|0.760563|-
-TCONS_00000091 XLOC_000068 Xkr4|Xkr4 i - q2:CUFF.81|CUFF.81.1|100|11.211141|1.183592|21.238690|0.636792|-
-TCONS_00000092 XLOC_000069 Xkr4|Xkr4 i - q2:CUFF.83|CUFF.83.1|100|21.126772|0.000000|51.004540|1.200000|-
-TCONS_00000093 XLOC_000070 Xkr4|Xkr4 i - q2:CUFF.85|CUFF.85.1|100|19.014095|0.000000|38.028190|1.080000|-
-TCONS_00000094 XLOC_000072 Xkr4|Xkr4 i - q2:CUFF.87|CUFF.87.1|100|24.170460|0.000000|52.080103|1.372881|-
-TCONS_00000095 XLOC_000074 Xkr4|Xkr4 i - q2:CUFF.89|CUFF.89.1|100|29.709524|0.000000|64.015126|1.687500|-
-TCONS_00000096 XLOC_000076 Xkr4|Xkr4 i - q2:CUFF.91|CUFF.91.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000097 XLOC_000078 Xkr4|Xkr4 i - q2:CUFF.93|CUFF.93.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000098 XLOC_000079 Xkr4|Xkr4 i - q2:CUFF.95|CUFF.95.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000099 XLOC_000081 Xkr4|Xkr4 i - q2:CUFF.97|CUFF.97.1|100|35.211287|0.000000|85.007567|2.000000|-
-TCONS_00000100 XLOC_000082 Xkr4|Xkr4 i - q2:CUFF.99|CUFF.99.1|100|19.602160|0.000000|39.204320|1.113402|-
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffcompare_out7.txt
--- a/test-data/cuffcompare_out7.txt
+++ /dev/null
@@ -1,33 +0,0 @@
-# Cuffcompare v2.0.2 | Command line was:
-#cuffcompare -o cc_output -r /Users/jeremy/projects/galaxy-central/database/files/002/dataset_2770.dat -R ./input1 ./input2
-#
-
-#= Summary for dataset: ./input1 :
-# Query mRNAs : 50 in 50 loci (0 multi-exon transcripts)
-# (0 multi-transcript loci, ~1.0 transcripts per locus)
-# Reference mRNAs : 1 in 1 loci (1 multi-exon)
-# Corresponding super-loci: 1
-#--------------------| Sn | Sp | fSn | fSp
- Base level: 2.2 2.3 - -
- Exon level: 0.0 0.0 0.0 0.0
- Intron level: 0.0 nan 0.0 nan
-Intron chain level: 0.0 nan 0.0 nan
- Transcript level: 0.0 0.0 0.0 0.0
- Locus level: 0.0 0.0 0.0 0.0
-
-Matching intron chains: 0
- Matching loci: 0
-
- Missed exons: 2/3 ( 66.7%)
- Novel exons: 49/50 ( 98.0%)
- Missed introns: 2/2 (100.0%)
- Missed loci: 0/1 ( 0.0%)
- Novel loci: 49/50 ( 98.0%)
-
-#= Summary for dataset: ./input2 :
-# Query mRNAs : 50 in 50 loci (0 multi-exon transcripts)
-# (0 multi-transcript loci, ~1.0 transcripts per locus)
-# Reference mRNAs : 0 in 0 loci (0 multi-exon)
-
- Total union super-loci across all input datasets: 87
- (0 multi-transcript, ~1.1 transcripts per locus)
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffdiff_in1.sam
--- a/test-data/cuffdiff_in1.sam
+++ /dev/null
@@ -1,400 +0,0 @@
-EAS38_8_212_338_985 0 chr1 3004981 0 35M * 0 0 CCAATGGGCCTCTATTTGCAGTGATGGGCGAGTAG hhhhhhhhhhhhhEhhhhYhhhhUhhh@Ih?BZ?e NM:i:2
-EAS38_8_8_215_414 0 chr1 3035356 0 35M * 0 0 TACCCCATAAAAGCCCCTGGCTTTCGCGCCTCGTG hhhhhhhhhhhhhhhhhhhhhhh`GI>PPIQPBOH NM:i:1
-EAS38_8_8_622_393 16 chr1 3065512 0 35M * 0 0 AAAAAAAAAAAAACAAAAAAAAAAAAAACAGCGAG hhHhhhhhhhhhhMhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_53_557_326 16 chr1 3075162 0 35M * 0 0 TAGAGAAATGGATACAGAAAGTGTGGTAATTTACA Ihehhhhh]hhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_259_911_538 0 chr1 3099409 0 35M * 0 0 TTTGGCTGGGAGACAATTAATGACTGCTTTTTTTT hhhhhhhhhhhh_hhhhhNhhP\hhaEhhHhNhhh NM:i:2
-EAS38_8_284_729_569 16 chr1 3113004 255 35M * 0 0 CTATCTGTTGCAAAGAGAACTTTCCTTGGTGTAAG EIIEKhRh@K_hahhhhhhh`ehhhhhhhhhhhhh NM:i:0
-EAS38_8_27_537_242 0 chr1 3118613 255 35M * 0 0 AGGACTCACATTCCCTTACTTTGTTTACAAAATGA hhh`hhhhhhhhhhhhhhhhhhhhhh]hhYXOhD` NM:i:0
-EAS38_8_38_947_12 0 chr1 3131368 0 35M * 0 0 TATTAGTCCCCTATCANATTTAGGATTGTTAATAA hhhhhhh_bchhhhUh;\hhhhh`EXcIVhNJZ]P NM:i:2
-EAS38_8_205_433_879 16 chr1 3136988 0 35M * 0 0 CATATCAATTGAACGGAACTAAAGTCTGTGACAGT hhhhchhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_155_191_162 16 chr1 3136999 0 35M * 0 0 AACGGAACTAAAGTCTGTGACAGTGGACATAGCTG hh_h\hhYhhhhhMhfhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_216_635_828 0 chr1 3137063 0 35M * 0 0 ATCTGGAATTATGTGATTATAATTTTCTTAGCATT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_317_949_784 0 chr1 3137063 0 35M * 0 0 ATCTGGAATTATGTGATTATAATTTTCTTAGCATT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhNchh NM:i:0
-EAS38_8_278_281_786 16 chr1 3137078 0 35M * 0 0 ATTATAATTTTCTTAGCATTTTCTTTGTAAAAAAA AhhhQhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_228_462_705 0 chr1 3137133 0 35M * 0 0 GTTGGTGTATAGTAAAAAGTAAAGAAATTCTGAGA hhhhhhhhhhhhhhhhhhh_hghhWhYh`LhhKbY NM:i:0
-EAS38_8_299_582_840 0 chr1 3137133 0 35M * 0 0 GTTGGTGTATAGTAAAAAGTAAAGAAATTCTGAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhWhhhhh NM:i:0
-EAS38_8_125_742_683 16 chr1 3137135 0 35M * 0 0 TGGTGTATAGTAAAAAGTAAAGAAATTCTGAGAGG GJCZSShchhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_208_212_874 0 chr1 3137137 0 35M * 0 0 GTGTATAGTAAAAAGTAAAGAAATTCTGAGAGGAG hhhhhhhhhhhhhhhhhhhhhhhhh[hhhhhhh`h NM:i:0
-EAS38_8_241_424_62 16 chr1 3137137 0 35M * 0 0 GTGTATAGTAAAAAGTAAAGAAATTCTGAGAGGAG hhhhhhhhehhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_245_195_910 16 chr1 3137137 0 35M * 0 0 GTGTATAGTAAAAAGTAAAGAAATTCTGAGAGGAG Bhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_234_890_706 0 chr1 3137138 0 35M * 0 0 TGTATAGTAAAAAGTAAAGAAATTCTGAGAGGAGT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhUhh NM:i:0
-EAS38_8_317_909_810 16 chr1 3137175 0 35M * 0 0 TATTTTAGGATAATACATATATACATATGCAGTGT hhhhhhhaThhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_111_444_456 0 chr1 3137180 0 35M * 0 0 TAGGTTAATACATATATACATATGCAGTGTGTGTG hhhhhhhhhhhhhhhhhhhahhhhhhhhgehhhhH NM:i:1
-EAS38_8_134_193_731 0 chr1 3137180 0 35M * 0 0 TAGGATAATACATATATACATATGCAGTGTGTGTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_138_869_374 0 chr1 3137180 0 35M * 0 0 TAGGATAATACATATATACATATGCAGTGTGTGTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_36_257_907 0 chr1 3137192 0 35M * 0 0 TATATACATATGCAGTGTGTGTGCCAGTGGTGTTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhNJDhS NM:i:0
-EAS38_8_50_322_852 0 chr1 3137192 0 35M * 0 0 TATATACATATGCAGTGTGTGTGCCAGTGGTGTTA hhhhhhhhhhhhhhhhhhhhhhhRcZhhhhVhShY NM:i:0
-EAS38_8_207_430_640 16 chr1 3146524 0 35M * 0 0 AAAAAACATCGGCACAACAATCAAAAAAAAAAAAA VE_AhhhhFhhhhh]hhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_289_914_684 0 chr1 3154024 255 35M * 0 0 TCACAGAAGGCTCACTTCCTTTCTGTCTGTGTCAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhdhhMGT NM:i:0
-EAS38_8_35_737_747 16 chr1 3174758 255 35M * 0 0 TTTTGGGTGAGATGGAATCTCAGAGTAGTTATTTT [hghdhMhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_75_492_572 16 chr1 3174758 255 35M * 0 0 TTTTGGGTGAGATGGAATCTCAGAGTAGTTATTTT [Vhhh^hhhhhhhhhhhdhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_187_160_172 16 chr1 3175562 255 35M * 0 0 TAGTCTGGTCTGTGGCTTCAGCGGTAGGATGGCCT BT\JAGMQVRN[QhYZGchhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_56_600_894 0 chr1 3175828 255 35M * 0 0 GAGAAAGAGGTGGGAAGGGAAAGAGAGAGAGAAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhShChDKhI NM:i:0
-EAS38_8_106_467_709 16 chr1 3181781 255 35M * 0 0 CTTTAGTACAGGTTACATTCCATACCTATAGCAAG hhhhhhhhhhh`hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_199_476_527 16 chr1 3181781 255 35M * 0 0 CTTTAGTACAGGTTACATTCCATACCTATAGCAAG E[dbhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_116_967_124 16 chr1 3187134 255 35M * 0 0 ATAGCTCTTCATCTAGGGGTGGGACTTTTGAGATT hghYhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_182_44_990 16 chr1 3187394 255 35M * 0 0 GAAATGCTCATTCTCATAGAGAAGAGATTGCCTAG EhhhaKhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_203_996_132 16 chr1 3187394 255 35M * 0 0 GAAATGATCATTCTCATAGAGAAGAGATTGCCTAG JXJ`_eFVVhhhhhchhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_318_612_118 0 chr1 3188522 255 35M * 0 0 GTATTCTTAATCTATTGTGTTTTGTTTGTTCTTTG hhhhhhhhhhhhhhhhhhShhhhIhhhWhh_hYhC NM:i:1
-EAS38_8_52_573_715 16 chr1 3188914 255 35M * 0 0 TTTGGAAGATAGTTTTCATTTCAGGACTGTCATTA hh]hDhh\hhhghhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_82_668_114 16 chr1 3189123 255 35M * 0 0 TAGATTCTGTTGAAAGCTGCTTGTGTAGGTGCTGG Jhfheh@_Nh`hhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_229_732_980 16 chr1 3189293 255 35M * 0 0 ATATGTAGAAAAAGAAAGCAATTAGATGTATCATA hhhhWhhOhhhhhghhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_49_685_15 0 chr1 3189811 255 35M * 0 0 CTTTTAAAATGACCACAGTGTACTTTATTTAATTA hhhhhhhhhhhhhhhhhhhhhhhhhh]hhhPahZQ NM:i:2
-EAS38_8_228_500_937 0 chr1 3189812 255 35M * 0 0 TTTTAAAATGACCACAGTGTACTTTATTTAATGAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhLh NM:i:1
-EAS38_8_8_865_653 0 chr1 3189812 255 35M * 0 0 TTTTAAAATGACCACAGTGTACTTTATTTAATGAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_284_550_449 0 chr1 3189815 255 35M * 0 0 TGAAATGACCACAGTGTACTTTATTTAATGATTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhPhhhh NM:i:1
-EAS38_8_44_493_707 0 chr1 3189839 255 35M * 0 0 TTAATGATTTTTGTACTTTGTGTTGCAATAAAATA hhhhhhhhhhhhhhhhhhhhhhhhRhhhhhhhhhh NM:i:0
-EAS38_8_173_339_743 0 chr1 3189847 255 35M * 0 0 TTTTGTACTTTGTGTTGCAATAAAATAAAAAAAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhZhhhf NM:i:0
-EAS38_8_69_320_425 16 chr1 3189862 255 35M * 0 0 TGAAATAAAAAAAAAAAAAAATCTACAAAATTCAA _OahhShhhhAhhhhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_253_215_784 0 chr1 3189882 255 35M * 0 0 ATCTACAAAATTCAAATATATAAAATTTCAAGTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_254_492_492 0 chr1 3189882 255 35M * 0 0 ATCTACAAAATTCAAATATATAAAATTTCAAGTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhchhhhh NM:i:0
-EAS38_8_164_969_744 0 chr1 3189884 255 35M * 0 0 CTACAAAATTCAAATATATAAAATTTCAAGTTTTC hhhhhhhhhhhhhhhhhhhhhVhhWhTNchDhhgA NM:i:0
-EAS38_8_76_118_672 0 chr1 3189938 255 35M * 0 0 AGAAAAAAAATCAGATAACCGAGGAAAATTATTCA hhhhhhhhhhhhhhhhhhhhhhhh]hhhhhThhR] NM:i:0
-EAS38_8_322_903_184 16 chr1 3189967 255 35M * 0 0 TATTCATTATGAAGTACTACTTTCCACTTCATTTC O[ENehNVh`ahh]hhhhhhWhhhhhhhhhhhhhh NM:i:0
-EAS38_8_122_863_114 16 chr1 3189975 255 35M * 0 0 ATGAAGTACTACTTTCCACTTCATTTCATCACAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_328_905_544 0 chr1 3189975 255 35M * 0 0 ATGAAGTACTACTTTCCACTTCATTTCATCACAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhXhO NM:i:0
-EAS38_8_49_611_982 16 chr1 3189991 255 35M * 0 0 CACTTCATTTCATCACAAATTGTAACTTACTTAAC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_149_471_590 0 chr1 3189993 255 35M * 0 0 CTTCATTTCATCACAAATTGTAACTTACTTAACTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhc NM:i:0
-EAS38_8_176_471_461 0 chr1 3189993 255 35M * 0 0 CTTCATTTCATCACAAATTGTAACTTACTTAACTG hhhhhhhhhhhhhhhhhhhhhhchhh`hhh[hhhO NM:i:0
-EAS38_8_330_91_472 16 chr1 3189999 255 35M * 0 0 TTAATCACAAATTGTAACTTACTTAACTGACCAAA hhOhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_330_964_788 16 chr1 3189999 255 35M * 0 0 TTCATCACAAATTGTAACTTACTTAACTGACCAAA aIhhhh`hhhhhhhhhhhhhBhhhhhhhchhhhhh NM:i:0
-EAS38_8_281_200_582 16 chr1 3190038 255 35M * 0 0 CTATGGTACTGCAGTATAGAAAATACTCCACACAC ONK[MhhhdhhQhhhhhhhMhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_241_125_175 16 chr1 3190056 255 35M * 0 0 GAAAATAATCCACACACTGTGCTTTGAGCTAGAGC HhhhhShIhhShhhhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_274_895_968 0 chr1 3190074 255 35M * 0 0 GTGCTTTGAGCTAGAGCACTTGGAGTCACTGCACA hhhhhhhhhhhhhhhhPhOhhhhPhhMTMXhLBMC NM:i:1
-EAS38_8_274_589_297 16 chr1 3190081 255 35M * 0 0 GAGCTAGAGCACTGGGAGTCACTGCCCAGGGCAGC ]W_IHUh_hh^WZDhhhhKhhh[hhhhhhhhhhhh NM:i:1
-EAS38_8_11_418_433 0 chr1 3190094 255 35M * 0 0 TGGAGTCACTGCCCAGGGCAGCAGCCTCCAACCAA hhhhhhhhhhhhhhhhhhbCchhb`PUPhJWIOGA NM:i:0
-EAS38_8_324_436_604 16 chr1 3190136 255 35M * 0 0 ACACTTACAAGTTGAATTCTAAAGGAAGGTCTGGT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_131_262_425 16 chr1 3190137 255 35M * 0 0 CACGTACAAGTTGAATTCTAAAGGAAGGTCTGGTT dVKEhhhhhhhWhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_5_661_318 16 chr1 3190137 255 35M * 0 0 CACTTACAAGTTGAATTCTAAAGGAAGGTCTGGTT F^O_ZhhhhhAhhhhhMh`hhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_109_581_805 0 chr1 3190144 255 35M * 0 0 AAGTTGAATTCTAAAGGAAGGTCTGGTTATGTGGG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_279_908_963 0 chr1 3190154 255 35M * 0 0 CTAAAGGAAGGTCTGGTTATGTGGGGTTGGAATAT hhhhhhhhhhhhhhhhhhhhhhhhhhDhhhRDEhH NM:i:0
-EAS38_8_207_793_649 16 chr1 3190155 255 35M * 0 0 TAAAGGAAGGTCTGGTTATGTGGGGTTGGAATATG FThTO[ZcIHRhhShhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_249_136_550 0 chr1 3190167 255 35M * 0 0 TGGTTATGTGGGGTTGGAATATGTATATCTATATA hhhhhhhhhhhhhhhhhghhhhhhhhhhhhDhJhh NM:i:0
-EAS38_8_197_214_431 16 chr1 3190168 255 35M * 0 0 GGTTATGTGGGGTTGGAATATGTATATCTATATAT EUEU@QhJhhVgFUhhhhPhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_124_625_963 16 chr1 3190174 255 35M * 0 0 GTGGGGTTGGAATATGTATATCTATATATCTCTAT ]hdTChhhXhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_314_668_328 16 chr1 3190176 255 35M * 0 0 GGGGTTGGAATATGTATATCTATATATCTCTATAT hhhh]]hhhhOh_hhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_8_247_406 16 chr1 3190176 255 35M * 0 0 GGGGTTGGAATATGTATATCTATATATCTCTATAT fY]NUFQQhhVcRhhhhhhehhhhhhhhhhhhhhh NM:i:0
-EAS38_8_45_380_957 16 chr1 3190191 255 35M * 0 0 ATATCTATATATCTCTATATATATTTACATCAAAG hhhVhbhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_224_453_647 16 chr1 3190214 255 35M * 0 0 TTTACATCAAAGAATTTAATAACTCATTTAAATTT hKhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_120_914_892 0 chr1 3190236 255 35M * 0 0 CTCATTTAAATTTTTGTTTCAAATAAAATTCCAAA hhhhhhhhhhhhhhhhhhhhhhhhhhfhhhLWh]K NM:i:0
-EAS38_8_8_442_670 0 chr1 3190258 255 35M * 0 0 ATAAAATTCCAAATACATTTGTACAATGTTTACAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhRhhTe_\ NM:i:0
-EAS38_8_245_767_298 16 chr1 3190284 255 35M * 0 0 TGTTTACAAAGTAAGAGACAGGACTGGCAGGTTTG WOF`hhhhhhhbhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_94_374_121 16 chr1 3190284 255 35M * 0 0 TGTTTACAAAGTAAGAGACAGGACTGGCAGGTTTG Shh`hhRhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_256_414_787 0 chr1 3190333 255 35M * 0 0 CACCGTGATGTCCGGGTGATATATCTTCACGTTGC hhhhhhhhhhhhhhhhdhchhhhh`hhJRBhfhhJ NM:i:0
-EAS38_8_215_417_539 16 chr1 3190353 255 35M * 0 0 ATATCTTCACGTTGCCTGCACACACCTTATTTCTG VAHGh@XhBhhhRhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_167_839_349 0 chr1 3190379 255 35M * 0 0 TTATTTCTGAAATGGAGAGAGAAACTCAAGAATGT hhhhhhhhhhhhhhhhhhhhhdhhhhhPhhDhhCh NM:i:0
-EAS38_8_235_344_488 0 chr1 3190402 255 35M * 0 0 ACTCAAGAATGTCACCGACTATGCATCAGAATACT hhhhhhhhhhhhhhhhhLhhhhbfhGUILPJQQPL NM:i:0
-EAS38_8_287_803_220 0 chr1 3190402 255 35M * 0 0 ACTCAAGAATGTCACCGACTATGCATCAGAATACT hhhhhhhhhhhhhhhhhhhhhhhhdhgTMVEh\^N NM:i:0
-EAS38_8_23_488_181 16 chr1 3190434 255 35M * 0 0 ACTATGTACAGTTGAAGTTAGGGAGCTGAGAACCT hChhhhOhhhhgUhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_137_662_459 16 chr1 3190469 255 35M * 0 0 AGTGTTCTGTTCTCTTCTGGTTTGTCTTCATCTAC eOKeGUhIhVhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_228_762_237 16 chr1 3190469 255 35M * 0 0 AGTGGTCTGTTCTCTTCTGGTTTGTCTTCATCTAC ZhMhbWK\hgShShhhh^hhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_65_836_536 16 chr1 3190469 255 35M * 0 0 AGTGTTCTGTTCTCTTCTGGTTTGTCTTCATCTAC ahYhThhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_100_122_849 0 chr1 3190545 255 35M * 0 0 CAAACATTGGAAAGAGGAAGGAGAAAAACACAAAA hhhhhhhhhhhhhhhhhhhhhXhhhhhhCdM[TUh NM:i:1
-EAS38_8_172_157_846 16 chr1 3190553 255 35M * 0 0 GGAAAGAGGAAGGAGAAAAGTACAAAATATTTAAG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_166_123_980 16 chr1 3190565 255 35M * 0 0 GAGAAAAGCACAAAATATTTAAGGCAAATTAAGCA FhThhhhLhhhhhhhhhhhhhhhbhhhhhhhhhhh NM:i:0
-EAS38_8_202_25_949 16 chr1 3190601 255 35M * 0 0 ATATGTATAGTCTCTTTGTGCCAGGAGGATGTGAC OKTX@[hhdGVhVhhhhMhdhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_135_382_764 0 chr1 3190604 255 35M * 0 0 TGTACAGTCTCTTTGTGCCAGGAGGATGTGACTTT hhhhhhhhhhhhhhhhhhhhhhhhhOhhhhYHhhh NM:i:0
-EAS38_8_256_748_407 16 chr1 3190604 255 35M * 0 0 TGTACAGTCTCTTTGTGCCAGGAGGATGTGACTTT RWEhhhhZhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_328_369_595 0 chr1 3190604 255 35M * 0 0 TGTACAGTCTCTTTGTGCCAGGAGGATGTGACTTT hhhhhhhhhhhhhhhhhhhhhhhhhFahJORXhhh NM:i:0
-EAS38_8_13_985_934 16 chr1 3190609 255 35M * 0 0 AGTCTCTTTGTGCCAGGAGGATGTGACTTTCTTTT STZhQhhUhcdhhhhdSh^Zhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_13_657_254 0 chr1 3190659 255 35M * 0 0 GCTTTAAAAAATTCAAATAAAGCAAGTCTGGTGTG hhhhhhhhhhhhhhhhhhhhhhhhZhhhhhYh]h\ NM:i:0
-EAS38_8_97_368_634 0 chr1 3190659 255 35M * 0 0 GCTTTAAAAAATTCAAATAAAGCAAGTCTGGTGTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_158_637_333 0 chr1 3190697 255 35M * 0 0 TGGGTTGCTTGTGTTGTTTTAATTTTTTTTGAAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh@ZMhQ NM:i:0
-EAS38_8_7_431_889 0 chr1 3190697 255 35M * 0 0 TGGGTTGCTTGTGTTGTTTTAATTTTTTTTGAAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_129_799_390 0 chr1 3190859 255 35M * 0 0 TAAAATAATGAGAGAATGGAGAACCAATGTAAGGA hhhhhhhhhhhhbhQMhhhXhJgFNJVKJLT>BI? NM:i:0
-EAS38_8_186_234_660 16 chr1 3190910 255 35M * 0 0 TCTGGAAGCAGGCTCACCAAGTATGATGGTTTCAT bb\hhhhhhhhdhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_99_392_34 16 chr1 3190940 255 35M * 0 0 TTCATACACAGAAAAACATTTGTTCTTTTGGATGC `dAhhhEUMhhhhhhhhhhThhhhhhhhhhhhhhh NM:i:1
-EAS38_8_141_299_800 0 chr1 3190964 255 35M * 0 0 CTTTTGGATGCCATTAGTTCAGCCAGTGTCAACAT hhhhhhhhhhhhhhhhhhhhhhhhahhhhhhhQh] NM:i:0
-EAS38_8_41_30_673 0 chr1 3190983 255 35M * 0 0 CAGCCAGTGTCAACATGACTAGTGGTTTCCCCAGC hhhhhhhhhhhhhhhhhhQhhhhhhJhh>SWHLEM NM:i:1
-EAS38_8_270_818_467 16 chr1 3191047 255 35M * 0 0 CTGCTTTCCAGGCTTCTCATCTATAGATAGAGAAG YADUL]DhhhhYhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_295_700_520 0 chr1 3191049 255 35M * 0 0 GCTTTCCAGGCTTCTCATCTATAGATAGAGAAGAC hhhhhhhhhhhhhhhhhhhhRhhhhhhah`IhRXG NM:i:0
-EAS38_8_326_937_869 0 chr1 3191049 255 35M * 0 0 GCTTTCCAGGCTTCTCATCTATAGATAGAGAAGAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhQMhFG? NM:i:1
-EAS38_8_156_546_203 0 chr1 3191080 255 35M * 0 0 AGACTTTTACAAGGTGTATGTATTGAATCCATTAT hhhhhhhhhhhhhhhhhhhfhhhhDhhVhhRhhPh NM:i:1
-EAS38_8_226_788_95 0 chr1 3191080 255 35M * 0 0 AGACTTTTACAAGGTGTATGTATTTAAGCCATTAT hhhhhhhhhhhhhhhhhhhhhhhhPhhSghchhhh NM:i:1
-EAS38_8_206_454_499 16 chr1 3191117 255 35M * 0 0 AAAATGACATTATTTATCATTATTAGAAATTCCAA hhhhZhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_126_432_418 0 chr1 3191141 255 35M * 0 0 AGAAATTCCAACCCTAGTTATGAAAGATTGAGGGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhYhchR NM:i:0
-EAS38_8_255_473_525 0 chr1 3191143 255 35M * 0 0 AAATTCCAACCCTAGTTATGAAAGATTGAGGGAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhWhhhafh NM:i:0
-EAS38_8_293_908_459 16 chr1 3191160 255 35M * 0 0 ATGAAAGATTGAGGGAAAGTGATAAAGAACAAAAG hhehhhhhhYhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_126_512_733 0 chr1 3191163 255 35M * 0 0 AAAGATTGAGGGAAAGTGATAAAGAACAAAAGGGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhN NM:i:0
-EAS38_8_132_357_350 0 chr1 3191163 255 35M * 0 0 AAAGATTGAGGGAAAGTGATAAAGAACAAAAGGGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh^hL NM:i:0
-EAS38_8_225_963_686 16 chr1 3191186 255 35M * 0 0 GAACAAAAGGGAGGGATATTATTCTCTCATTTTTA UchhhhfhhhahNhahhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_91_183_721 0 chr1 3191203 255 35M * 0 0 ATTATTCTCTCATTTTTAACAGCATATTTGTCTTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh[ NM:i:0
-EAS38_8_91_184_720 0 chr1 3191203 255 35M * 0 0 ATTATTCTCTCATTTTTAACAGCATATTTGTCTTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhX NM:i:0
-EAS38_8_37_742_366 16 chr1 3191253 255 35M * 0 0 TACTGTGTGGCTTCAAAGAAGATAGTCATCTCTGG h]hQhhB_hhRhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_164_833_223 16 chr1 3191267 255 35M * 0 0 AAAGAAGATAGTCATCTCTGGTTCTCTTACTGAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_20_3_646 16 chr1 3191299 255 35M * 0 0 AGAATAGAAAGTCTCTCCTTACTGAGAATAGGAAG hVhh_hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_305_336_434 16 chr1 3191299 255 35M * 0 0 AGAATAGAAAGTCTCTCCTTACTGAGAATAGGAAG hhhhhhhhhhhUhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_133_876_487 16 chr1 3191301 255 35M * 0 0 AATAGAAAGTCTCTCCTTACTGAGAATAGGAAGCC hhGhThhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_58_243_264 16 chr1 3191305 255 35M * 0 0 GAAAGTCTCTAATTACTGAGAATAGGAAGCCATCT hhhhh?UQLOIAhhhWhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_158_87_484 16 chr1 3191325 255 35M * 0 0 AATAGGAAGCCATCTTCATACCTGTCCCTCTGCAT gh@hChhhh`LhFhhghhRhhhhhghhhhhhhhhh NM:i:0
-EAS38_8_49_289_587 16 chr1 3191360 255 35M * 0 0 TTATTCTTGAGGTTACTGAGCCATCTGGCTACAGA hhh^XhKUhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_226_316_409 0 chr1 3191368 255 35M * 0 0 GAGGTTACTGAGCCATCTGGCTACAGAGAAGAAAA hhhhhhhhhhhhhhhhhhahhhah_UOhDENhC[G NM:i:0
-EAS38_8_27_871_685 16 chr1 3191375 255 35M * 0 0 CAGAGCCATCTGGCTACAGAGAAGAAAAGCAAGAG gAhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_323_782_711 16 chr1 3191375 255 35M * 0 0 CTGAGCCATCTGGCTACAGAGAAGAAAAGCAAGAG hGdhZhghhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_138_990_817 16 chr1 3191399 255 35M * 0 0 AAAAGCAAGAGTTGTTTTTTTATTTTTATTTTATT hhhhKhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_185_443_369 16 chr1 3191399 255 35M * 0 0 AAAAGCAAGAGTTGTTTTTTTATTTTTATTTTATT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_16_393_343 16 chr1 3191400 255 35M * 0 0 AAAGCAAGAGTTGTTTTTTTATTTTTATTTTATTT hhhhVhhhhhI]hPJhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_50_691_313 16 chr1 3191400 255 35M * 0 0 AAAGCAAGAGTTGTTTTTTTATTTTTATTTTATTT hhhhhhhhhhhhhXhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_189_168_310 16 chr1 3191408 255 35M * 0 0 AGTTGTTTTTTTATTTTTATTTTATTTTTATTTTT hhWWhhh[hh_hhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_247_520_310 16 chr1 3191408 255 35M * 0 0 AGTTGTTTTTTTATTTTTATTTTATTTTTATTTTT hhTRhhh]hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_8_620_387 0 chr1 3191411 3 35M * 0 0 TTTTTTTTTATTTTTATTTTATTTTTATTTTTTTA hhhhhhhhhhhhhhh`hhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_264_985_305 0 chr1 3191415 1 35M * 0 0 TTTTTATTTTTATTTTATTTTTATTTTTTTAATTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhOhh NM:i:1
-EAS38_8_290_750_320 16 chr1 3191505 255 35M * 0 0 CAGACAATGGCTTTAAGTGGGGCCTATATGAACTG BaFA>PbShGXfXhh_hJhh[hhhhhhhhhhhhhh NM:i:1
-EAS38_8_220_527_228 16 chr1 3191562 255 35M * 0 0 CGGTTTTGTGAAGGTAATATATCAGTAATATGGTT E[gYhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_181_540_123 0 chr1 3191572 255 35M * 0 0 AAGGTAATATATCAGTAATATGGTTGACATAAATA hhhhhhhhhhhhhhhhhhhhhhhhhOfhPhhEZDS NM:i:0
-EAS38_8_28_698_660 0 chr1 3191572 255 35M * 0 0 AAGGTAATATATCAGTAATATGGTTGACATAAATA hhhhhhhhhhhhhhhhhhhhhhhhhheRchhHhGh NM:i:0
-EAS38_8_304_298_316 0 chr1 3191572 255 35M * 0 0 AAGGTAATATATCAGTAATATGTTTGACATAAATA hhhhhhhhhhhhhhhhhhhhhhhhhhbchhhTchh NM:i:1
-EAS38_8_146_777_942 0 chr1 3191575 255 35M * 0 0 GTAATATATCAGTAATATGGTTGACATAAATAAGC hhhhhhhhhhhhhhhhhhhhhhhhahhhhhhhhhG NM:i:0
-EAS38_8_206_582_659 0 chr1 3191575 255 35M * 0 0 GTAATATATCAGTAATATGGTTGACATAAATAAAC hhhhhhhhhhhhhhhhhhhhhhhhhhhhgh[hh@T NM:i:1
-EAS38_8_113_379_524 0 chr1 3191576 255 35M * 0 0 TAATATATCAGTAATATGGTTGACATAAATAAGCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhIh NM:i:0
-EAS38_8_197_772_581 16 chr1 3191611 255 35M * 0 0 GGGAAATAGTTCTTTTAGGAAGTAGAAGATTTTTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_256_457_159 16 chr1 3191611 255 35M * 0 0 GGGAAATAGTTCTTTTAGGAAGTAGAAGATTTTTC hhhhhhUhhhgPhhghhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_315_836_955 0 chr1 3191675 255 35M * 0 0 TGAAAAGAATGTTAGTTGGCTGTAACCATAAAATT hhhhhhhhhhhhhhhhhhhLhhHhhhEMhghJhUW NM:i:0
-EAS38_8_255_763_380 16 chr1 3191702 255 35M * 0 0 ATAAAATGGGCAGTTGTATTTACAAATAATCACAT hhhhhhhBhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_279_818_155 0 chr1 3191716 255 35M * 0 0 TGTATTTACAAATAATCACATATATGATGCTTACA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhT^G NM:i:0
-EAS38_8_48_883_242 16 chr1 3191719 255 35M * 0 0 ATTTAAAAATAATCACATATATGATGCTTACAGAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_78_140_97 0 chr1 3191764 255 35M * 0 0 ATTTCTAAATAATCACATATGCTAAAAGCTAGTTT hhhhhhhhhhhhhhhhhhhhPhhh\ThGhhDILh] NM:i:1
-EAS38_8_322_980_805 16 chr1 3191782 255 35M * 0 0 ATGCTAAAAGCTAGGTTTTTCTAATACACTTTTAT hSYhhhhhh\hhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_319_99_291 16 chr1 3191786 255 35M * 0 0 TAAAAGCTAGGTTTTTCTAATACACTTTTACTTTC hhhhhhhdhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_64_224_620 0 chr1 3191811 255 35M * 0 0 TTTTATTTTCATGGAGGGCTCTAGAGGTTTCCACG hhhhhhhhhhhhhPhhhhhhhhhhZh]>hhCPJQJ NM:i:1
-EAS38_8_108_348_710 0 chr1 3191850 255 35M * 0 0 ATAGAAACCACTGAAAAGAGACTCAACTCTTTTTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh\ NM:i:0
-EAS38_8_231_364_552 0 chr1 3191864 255 35M * 0 0 AAAGAGACTCAACTCTTTTTCCCCCCAGCAATATT hhhhhhhhhhhhhhhhhhhhhhhhhhfhhhRhEhh NM:i:0
-EAS38_8_116_293_619 0 chr1 3191865 255 35M * 0 0 AAGAGACTCAACTCTTTTTCCCCCCAGCAATATTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhchhhhX NM:i:0
-EAS38_8_145_345_869 0 chr1 3191865 255 35M * 0 0 AAGAGACTCAACTCTTTTTCCCCCCAGCAATATTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhchhXhhh NM:i:0
-EAS38_8_275_299_203 0 chr1 3191865 255 35M * 0 0 AAGAGACTCAACTCTTTTTCCCCCCAGCAATATTA hhhhhhhhhhhhhhhhhhhhhhhhhHBhhBhXh^\ NM:i:0
-EAS38_8_14_653_187 16 chr1 3191901 255 35M * 0 0 GTTGCTCTGGGCTGCTCTATGCATATGGCATGTTG NQKhhRTYh@hNdhhWMhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_123_560_667 16 chr1 3191909 255 35M * 0 0 GTGCTGCTCTATGCATATGGCATGTTGTTGGTACC eThh]hhfhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_158_848_347 16 chr1 3191913 255 35M * 0 0 GGCTCTATGCATATGGCATGTTGTTGGTACCTGTA @U\EWWhRbhhhhbhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_259_577_716 0 chr1 3191933 255 35M * 0 0 TTGTTGGTACCTGTACCATTCTCTTCCATTGAGAA hhhhhhhhhhhhhhhRhhhhhhhhh]hhhhhKhhh NM:i:0
-EAS38_8_37_266_444 16 chr1 3191981 255 35M * 0 0 GGTGGAGGAGCTGTTCAGCTCTCTCTAACCTATTT EfQhWOhh`hhWhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_298_155_843 16 chr1 3191988 255 35M * 0 0 GAGCTGTTCAGCTCTCTCTAACCTATTTAGATTTT Lhh`hhh[hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_171_911_326 16 chr1 3192010 255 35M * 0 0 CTATTTAGATTTTATCTTTCACTTTGTGATAGAAT [hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_213_546_978 16 chr1 3192010 255 35M * 0 0 CTATTTAGATTTTATCTTTCACTTTGTGATAGAAT afhhhhh\hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_165_431_451 0 chr1 3192012 255 35M * 0 0 ATTTAGATTTTATCTTTCACTTTGTGATAGAATCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhh]Chhhh NM:i:0
-EAS38_8_130_352_184 16 chr1 3192020 255 35M * 0 0 TTTATCTTTCACTTTGTGATAGAATCTCTCTATAG hfdhhYhhhghJhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_303_420_658 16 chr1 3192025 255 35M * 0 0 CTTTCACTTTGTGATAGAATCTCTCTATAGAATGT hKhhhUhhhhhhhhhhhhh]hhhhhhhhhhhhhhh NM:i:0
-EAS38_8_11_860_892 16 chr1 3192043 255 35M * 0 0 ATCTCTCTATAGAATGTTCTCTCCACCACCTCCTG LLhXhchhhh^@hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_166_250_850 16 chr1 3192043 255 35M * 0 0 ACCTCTCTATAGAATGTTCTCTCCACCACCTCCTG M@X?CGhhhhhLhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_41_436_855 0 chr1 3192251 255 35M * 0 0 TACCTTTTACCCACTTACTGTTCTTACATGACCTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhbAhhh NM:i:0
-EAS38_8_1_614_740 0 chr1 3192310 255 35M * 0 0 GCACTGTAGATATTTTTGAGGAGTCACATAATTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_1_615_739 0 chr1 3192310 255 35M * 0 0 GCACTGTAGATATTTTTGAGGAGTCACATAATTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_11_667_100 0 chr1 3192520 255 35M * 0 0 CTCCTCAAGGGAAAATTTGGAAAGTATTTCATATT hhhhhhhhhhhhhhhhhhh\hhhHhhhhhhhhhhh NM:i:0
-EAS38_8_142_397_982 16 chr1 3192642 255 35M * 0 0 CTGTTAGCACAGTTCAATGATACATTCTTATTTTA hVShThOhhhhGhhhhhhhAhFhhhhhhhhhhhhh NM:i:2
-EAS38_8_201_45_850 16 chr1 3192642 255 35M * 0 0 CTGTTAGCACAGTTCAATGGTGCATTCTTATTTTA hfMfYhhhVhh[hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_198_171_959 0 chr1 3192730 255 35M * 0 0 TAGTCATTTAGGCAAGGAAATAGACATTGTTTTGA hhhhhhhhhhhhhhhhhhhhhhhfZhhhhhhhhTR NM:i:0
-EAS38_8_300_863_946 16 chr1 3193601 255 35M * 0 0 ATTCCTTTCTTCTTTGTTGCTATCATTGAACCACA BGbhah[IhhhhhhfOhh^hhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_311_818_593 0 chr1 3193885 255 35M * 0 0 CACAGATGCACAGATTGATGATCTCTAGGAAAAAG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhZ]hh NM:i:0
-EAS38_8_126_604_962 0 chr1 3194707 255 35M * 0 0 TGGATCAAACAATTTAAACAACTTTAGCTTTACAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhKWh NM:i:1
-EAS38_8_95_901_210 0 chr1 3194707 255 35M * 0 0 TGGATCAAACAATTTAAACAACTTTAGCTTTACAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_145_407_869 16 chr1 3195051 255 35M * 0 0 TAGGTTGCAGTTGCTCTATGTGATGTATTTCTCTT ShP?MhHhhZhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_111_861_260 16 chr1 3196449 255 35M * 0 0 TTTTTTCCTGGAGTGCATAATGGATACATTTGATG \OhfhMhhShhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_167_257_42 16 chr1 3197418 255 35M * 0 0 AATTAAGGCATCAGTGTTCTGAACTGTGTGATAGC hhhAhhhhUhVhhhbhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_233_573_175 16 chr1 3197418 255 35M * 0 0 AATTAAGGCATAAGTGTTCTGAACTGTGTGATAGC hhDIhhhh[h_BhhVhhhdhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_305_871_204 16 chr1 3199438 255 35M * 0 0 AGTTGCTCACTTTCATGAGTAGCTTTGACTAATTA hXGMDTVdhhYhZhhPhhhhhhhhchhhhhhhhhh NM:i:0
-EAS38_8_231_724_560 0 chr1 3200057 255 35M * 0 0 TACAGCAATAACACATGGCAAATTCTTAATAATGA hhhhhhhhhhhhhhhhhhhhQhhhhhgJhShQeAA NM:i:0
-EAS38_8_203_543_728 0 chr1 3200118 255 35M * 0 0 CCACAAGGAAATCTATAGGCAAACAAAATAACCAA hhhhhhhhhhhhhhhhhhhhhhh^Xhhh_hh\@Ch NM:i:0
-EAS38_8_229_849_498 0 chr1 3200118 255 35M * 0 0 CCACAAGGAAATCTATAGGCAAACAAAATAACTAA hhhhhhhhhhhhhhhhhhhbhfhhY`hQcaK?hBV NM:i:1
-EAS38_8_119_995_590 0 chr1 3200431 255 35M * 0 0 CTTATTTCTGTGGGCACATGGCTGGTTGCCACTTC hhhhhhhhhhhhhhhhhhhhhhhhDVhEEJICIh@ NM:i:1
-EAS38_8_253_690_533 0 chr1 3200431 255 35M * 0 0 CTTATTTCTGTGGGCACATGGCTGCTTGCCCCTTC hhhhhhhhhhhhhhhhhhhhhhhhIhRHM@GQMR? NM:i:1
-EAS38_8_2_361_608 16 chr1 3200848 255 35M * 0 0 CAAATGTTGGGTAGCAGATTGGTGTCATAAGTCAA G^h^PNLLKh@hhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_19_443_443 16 chr1 3201005 255 35M * 0 0 GGTCCACCTTGGTCCTGCTGTGCTGTCAGCTTCTG N\MhhAVhQYhh]hhShhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_240_860_321 0 chr1 3201008 255 35M * 0 0 CCACCTTGGTCCTGCTGTGCTGTCAGCTTTTGTCT hhhhhhhhhhhhhhhhhhehhhhSGhHhP@YI`CL NM:i:1
-EAS38_8_159_889_369 16 chr1 3201153 255 35M * 0 0 TATATAGAAATAGTCGTGGCTAATGGCAAAGATAT Nh`hPhhhhhhhhNhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_6_649_343 16 chr1 3201153 255 35M * 0 0 TATATAGAAATAGTCGTGGCTAATGGCAAAGATAT hhhhhhhhhhhhhhhhhhhZhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_159_13_859 16 chr1 3201231 255 35M * 0 0 CATTAGAAAAAATTCACAGGATTCTTGTCTAAACA hhghhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_206_389_817 0 chr1 3201597 255 35M * 0 0 CATGCATTTCTAAGTTTATCTCTGTGTAGATGCAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhZhahhh NM:i:0
-EAS38_8_8_834_910 16 chr1 3201632 255 35M * 0 0 GTAAGAGAGTCAGTCTTTCTGTCTGTCTGTTTCTG KTEPRY\hhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_193_381_989 0 chr1 3201726 255 35M * 0 0 GGCAAATCTGTAGAAATTGATATCTCTTTATGTTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_218_286_583 16 chr1 3201770 255 35M * 0 0 CAGGGATCAAATTCAGGTCAAGTTTGCATCTTTTT hh[a\h\hhhh^hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_231_842_613 16 chr1 3201775 255 35M * 0 0 ATCAAGTTCAGGTCAAGTTTGCATCTTTTTTCAGT hahhhOhbhhhKhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_69_697_617 16 chr1 3201775 255 35M * 0 0 ATCAAATTCAGGTCAAGTTTGCATCTTTTTTCAGT heghhhOhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_315_783_294 16 chr1 3205321 255 35M * 0 0 CTAAAAGTAAAAACAAATCCTGAAATATGTAGAAA ERhhhhhXhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_208_943_432 16 chr1 3206163 255 35M * 0 0 CCTTGGAGGAGATGGGGAACATTCAAAAGCTAAAA bVQHbOhahhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_17_380_277 0 chr1 3209126 255 35M * 0 0 TTGGTGTGCTTATCCGACACTGTAGGTAGAAACCA hhhhhhhhhhhhhhhh]hPh\NhhJQhEKCEOJhG NM:i:1
-EAS38_8_156_409_184 16 chr1 3211514 255 35M * 0 0 CAAGAAAGATTGATGAGACACAGTTGATAGAGGGA HKhThhhhhhOhhghhhhLhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_189_963_938 0 chr1 3211535 255 35M * 0 0 AGTTGATAGAGGGATGATAAATAATCCTTTCCTTT hhhhhhhhhhhhhhhhahhh^hhdSGTTZ`>D[XR NM:i:0
-EAS38_8_194_593_290 0 chr1 3212718 255 35M * 0 0 GCTTAAGACACTTTGCATCCCTCTTTTGTAACATT hhhhhhhhhhhhhhhhhhhhhhhhhhhWhRK^Jhb NM:i:0
-EAS38_8_54_951_1001 0 chr1 3212775 255 35M * 0 0 ACTTTCCTTTTCAGGAAAAAAAATGTATATAATAT hhhhhhhhhhhhhhhhhhh[hhhhhIHhhdbaSOJ NM:i:0
-EAS38_8_55_222_593 16 chr1 3213111 255 35M * 0 0 CTCACTGCCTCCCTCTTAGGACTCTTACACTGAAA h>hPhf`ZhYhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_192_865_198 16 chr1 3213157 255 35M * 0 0 AGTCAATGCAAGAAAGCAGATGCTTCCATCTTGCT _JHhOhFhBhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_257_284_263 16 chr1 3213208 255 35M * 0 0 AAAAAAAACAAAACAAATCTCCACTTTTTGTAAAT hXhMhhhhOhhhhIhhhfhPhQhhhhhhhhhhhhh NM:i:2
-EAS38_8_14_341_452 0 chr1 3234830 255 35M * 0 0 CCTTGATGTCTTGATGGTTGAAATAGGTTACATTT hhhhhhhhhhhhhhhhhhhh`hhh^IhhhN`Lhhh NM:i:0
-EAS38_8_171_140_943 0 chr1 3239649 255 35M * 0 0 TCCCTGTTAGATTCAAATGTTACTTTATAGTTAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh^h NM:i:0
-EAS38_8_98_123_525 16 chr1 3240599 255 35M * 0 0 ACATCCCTCCCTAAATAAACCACAATCCACCCCCA hdhLDhEMhhfhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_178_873_141 16 chr1 3242478 255 35M * 0 0 TTTTTTTTTTTTTTTAAACAAGATTTTTAGTTTTT OVhhRhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_215_180_235 16 chr1 3242478 255 35M * 0 0 TGTTTTTTTTTTTTTAAACAAGATTTTTAGTTTTT hThhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_7_814_774 16 chr1 3242478 255 35M * 0 0 TTTTTTTTTTTTTTTAAACAAGATTTTTAGTTTTT Jhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_315_926_983 16 chr1 3242791 255 35M * 0 0 ACCTCCTCCTATAGCTTCTAGAGACAACAGACCTT @<BEAZIMRhHhIdhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_163_191_986 16 chr1 3242917 255 35M * 0 0 AATCATATTTTGACCTCAATTAGCCTTGGGGTTGA hhTRhSaeh\UAThhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_173_800_35 16 chr1 3242917 255 35M * 0 0 AATAATATTTTGACCTCAATTAGCCTTGGGGTTGA hh=FhRhVhOhShGhcZhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_25_295_514 0 chr1 3242979 255 35M * 0 0 GCTCTTCTGTCAAGAGTACCTGAAATTTATCTGTG hhhhhhhhhhhhhhhhhhhhhhhehhhhhhZhhhc NM:i:0
-EAS38_8_260_745_595 0 chr1 3242979 255 35M * 0 0 GCTCTTCTGTCAAGAGTACCTGAAATTTATCTGTG hhhhhhhhhhhhhhhhhhhhhhLhhhhhhhhhhfM NM:i:0
-EAS38_8_162_854_426 16 chr1 3243101 255 35M * 0 0 GAAAAAACCTGTCTTGGTCTGAGGTCTGGGCCACT >hhhhhPhhU_XhXZhhhhehhhhhhhhhhhhhhh NM:i:0
-EAS38_8_120_168_509 16 chr1 3243120 255 35M * 0 0 TGAGGTCTGGGCCACTGTTATTCAGAGTGAACAAC AZc^hCcMhhhWhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_219_315_931 16 chr1 3243676 255 35M * 0 0 TTTGTTGAAGGAGAACACAATGAGAGGTGCATATT ]OhYhhchhahhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_180_247_88 16 chr1 3244868 255 35M * 0 0 GCATACTTAAAATTAGGCTGCAATCAGTCTTCCTT _@hhhCJhhhhhhIhhhhShhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_144_513_481 0 chr1 3252847 255 35M * 0 0 AATGGCATTCAGTTAGCTTTAGTGACTGATCCCAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhBC NM:i:0
-EAS38_8_125_631_236 0 chr1 3253217 255 35M * 0 0 TGAGGCATGACCTCCTTTCACTGAATCTTAGTCTT hhhhhhhhhhhhhhhhhhhhhhhhehhhhhLChhh NM:i:1
-EAS38_8_312_169_822 16 chr1 3253312 255 35M * 0 0 AAGGCTAAAATTGCTGTTACCAGCTGCTATGCTTG [JNDIONDhWhhhhhhIhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_10_227_417 0 chr1 3253759 255 35M * 0 0 CAAATTTTAGCTCCTTTCCCAGTTTCCCTCTGGAA hYhhhhhhhhhhhhhhhh`hG_heh\V^hXhUBH? NM:i:0
-EAS38_8_144_231_566 0 chr1 3253759 255 35M * 0 0 CAAATTTTAGCTCCTTTCCCAGTTTCCCTCTGGAA hhhhhhhhhhhhhhhhhhXhghhhhROZWKbU\MM NM:i:0
-EAS38_8_208_276_857 16 chr1 3254072 255 35M * 0 0 TCAACTTCACAAGGAATTTGGAGTGACTGGCCTCC VdMOhLchXhhhh^hhhZhhhhhhh_hhhhhhhhh NM:i:0
-EAS38_8_6_640_930 16 chr1 3254072 255 35M * 0 0 TCAACTTCACAAGGAATTTGGAGTGACTGGCCTCC IHhOhJThchhhhWhhh_hhYhhhhhhhhehhhhh NM:i:0
-EAS38_8_261_856_180 0 chr1 3254263 255 35M * 0 0 GTTCCGCAACACCTGCCCTCACATTCCACTGAACT hhhhhhhhhhhhhhhhhhhhMhThh[NCKQD?DJK NM:i:1
-EAS38_8_97_169_815 0 chr1 3254597 3 35M * 0 0 ATCAGGCTACTTTCAGCAAGCACTTCTTGTCATCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhAh^hUh NM:i:1
-EAS38_8_250_270_899 0 chr1 3259536 255 35M * 0 0 CTAGATTAGCAGGTAATTTCTAAATCACACATTTA hhhhhhhhhhhhhhhhhhhhhhhhhahUJOhhYhb NM:i:0
-EAS38_8_267_436_563 0 chr1 3273793 255 35M * 0 0 TTTTTTTGTTTGTTTGTTTGTTTTTATACAACAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhchhh NM:i:1
-EAS38_8_244_916_490 16 chr1 3274218 255 35M * 0 0 GAGCCTAAACCAACCAACCAATGAATATACATAGG ThCYE@AhhhOhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_111_703_424 16 chr1 3274366 255 35M * 0 0 ACAGGGCACATGTTCTTCTAGCTGAGCTGCCTTGT L[gE[hhhhhghhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_224_315_306 16 chr1 3274921 255 35M * 0 0 GGAACTGTGCAAATTGTGTAACTGGAGAAAATAAT hhhh^hh_hhhhhhhhhhhhh`hhhhhhhhhhhhh NM:i:0
-EAS38_8_256_842_769 0 chr1 3277156 255 35M * 0 0 AATGATATTGGTTTGAAGTTCTTTAGCCCCATATT hhhhhhhhhhhhhhhhhhhhhhhhhhhh\hhh]hh NM:i:0
-EAS38_8_292_619_933 0 chr1 3277156 255 35M * 0 0 AATGATATTGGTTTGAAGTTCTTTAGCCTCATATT hhhhhhhhhhhhhhhhhhhhhhhhhhbOLhMhhhh NM:i:1
-EAS38_8_212_928_881 0 chr1 3277700 0 35M * 0 0 TCCTTTTCCTTTCCTTCCTTCCTTCCATCCTTCCT hhhhhhhdZghhaehhTVhhZhhhNT?h^MX]OBQ NM:i:2
-EAS38_8_223_507_484 0 chr1 3277914 255 35M * 0 0 TTCTGAAACTTGAGTACAGTGTTATTACCAATATT hhhhhhhhhhhhhhhhhhhLhhhhhhhKhLbheha NM:i:0
-EAS38_8_264_464_724 0 chr1 3277925 255 35M * 0 0 GAGTACAGTGTTATTACCAATATTCCCCCATTTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhghhhhh NM:i:0
-EAS38_8_97_398_795 0 chr1 3277927 255 35M * 0 0 GTACAGTGTTATTACCAATATTCCCCCATTTTTCC hhhhhhhhhhhhhhhhhhhhhhhLhhhVhhhhh^h NM:i:0
-EAS38_8_271_224_790 16 chr1 3277983 255 35M * 0 0 AGTGATGTCCTAACATGCTTGCTCTCTCATAACCA FhhQ`hhhhhhhhhhhhhhhhhghhhhhhhhhhhh NM:i:0
-EAS38_8_249_919_47 16 chr1 3277988 255 35M * 0 0 TGTCCTAACATGCTTGCTCTCTCATAACCAGACTT K=DFHUhLXhaJSbfLPfhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_264_398_810 16 chr1 3278029 255 35M * 0 0 AGTTTTGTTAGGTTTGCTGGTCTTTTAAAAGGTCT ZghhHhhhhTh[hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_202_252_118 16 chr1 3278057 255 35M * 0 0 AAGGTCTAGATTTTTGTTTCATTATTTTTTTTCTG hhhTDhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_195_472_45 0 chr1 3278134 255 35M * 0 0 CTTTTATTATATTCTTCCTCTTCGTTATTTTGAAT hhhhhhhhhhhhhhhhhhhhhhhPhhh]hhhWENh NM:i:1
-EAS38_8_200_268_981 0 chr1 3278134 255 35M * 0 0 CTTTTATTATATTCTTCCTCTTCGTTAGTTTGAAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheh NM:i:0
-EAS38_8_87_755_875 16 chr1 3278180 255 35M * 0 0 TTCTCTTAAGTATATGTTCTTATTAACTATTTTTT hhhUhhhhhThhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_184_481_627 16 chr1 3278254 255 35M * 0 0 GAGGCATTTTAGTGTTATGAACTCCCCTTGGCACT NH?=BNI[BT^YdUZ[hKJhhhPhhhhhhhhhhhh NM:i:0
-EAS38_8_241_955_483 16 chr1 3278295 255 35M * 0 0 GACACAGATAGGTTTTTATGTGCTATACTTACATT DbHYMhVhhhVhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_24_420_629 0 chr1 3278309 255 35M * 0 0 TTTATGTGCTATACTTACATTCAGTTCAATGTAAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhfhhhhhh NM:i:0
-EAS38_8_307_620_12 16 chr1 3278356 255 35M * 0 0 TTAGACTTCATTTTCTTCTTCTTTTTGGTTGTGAG IOhKhhJdLhhhJhIeTVZhhhhhhhfWhhhhhhh NM:i:0
-EAS38_8_55_835_895 0 chr1 3278373 255 35M * 0 0 CTTCTTTTTGGTTGTGAGCCTAGCCTTCAACGGTT hhhhhhhhhhhhhhhhhhWWhhhMTIhPTHIhc>D NM:i:1
-EAS38_8_230_275_815 16 chr1 3278376 0 35M * 0 0 TTTTTTGTTTGTGAGCCTAGCCTTCAACGGCTGAG \_NF]RQGZhWPOXPhhhahhhhhhhMhhXhhhhh NM:i:2
-EAS38_8_24_167_957 16 chr1 3278397 255 35M * 0 0 CTTCAACGTCTGAGCCATCTCTCCAGCCCTCTTCT VFA`N?hQ@hhLhehhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_253_546_769 0 chr1 3278576 255 35M * 0 0 TTCCCACTCTCTGGGGCCTCAAGTCTCTCAAATTA hhhhhhhhhhhhhhhhhhhhKRZhhhhh`KMhRTM NM:i:2
-EAS38_8_283_280_992 0 chr1 3278576 255 35M * 0 0 TTCCCACTCTCTGGGGCCTCAAGTCTCTCAAATGT hhhhhhhhhhhhhhhhhhhYhhhFHcBQJHUNK?C NM:i:0
-EAS38_8_4_499_790 0 chr1 3278607 255 35M * 0 0 ATGTTAGGCACATCTCCCACTGATTCCAGACCAGG hhhhhhhhhhhhhhhhe[hhhhUhcVOP`I?LTXH NM:i:0
-EAS38_8_166_353_693 0 chr1 3278725 255 35M * 0 0 GGTTAGTTGAGATTGCTGGTCTTTCTATGGGTTGC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhKhhhFS NM:i:0
-EAS38_8_227_305_410 16 chr1 3278920 255 35M * 0 0 TCAGACCTCTGCTGATCACCTGCATAGTTGGAGAT KJhH@NRIA_B`hhhhhhhhThhhhhhhhhhhhhh NM:i:1
-EAS38_8_151_783_299 16 chr1 3279317 255 35M * 0 0 CTTTTTTGTTCTATAGATATCAATTATTTACCCAC BTS^WdIUehQhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_130_64_600 0 chr1 3280118 255 35M * 0 0 GGTTTCGAGAAAATGTTTTGAAGTGTTTATGCGCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhchKOhSh NM:i:0
-EAS38_8_204_14_612 0 chr1 3280118 255 35M * 0 0 GGTTTCGAGAAAATGTTTTGAAGTGTTTATTCGCT hhhhhhhhhhhhhhhhhhhhfhhhhhhhhhBQhL\ NM:i:1
-EAS38_8_242_889_996 0 chr1 3280118 255 35M * 0 0 GGTTTCGAGAAAATGTTTTGAAGTGTTTATGCGCT hhhhhhhhhhhhhhhhhhhhh^hVhaahgeh@Z?N NM:i:0
-EAS38_8_82_262_363 0 chr1 3280320 255 35M * 0 0 AACATATTTTAAATTCCTCTCAGATTAAGAGAATT hhhhhhhhhhhhehhhhhhhh^hWhKhShWD@hhB NM:i:2
-EAS38_8_111_150_178 0 chr1 3282505 255 35M * 0 0 AGATACATAGAAAAGCTACTTGACTTTAGGTCAAC hhhhhhhhhhhhhhhhhhhhhUfhhhhhQOhh\Sh NM:i:0
-EAS38_8_260_477_698 0 chr1 3282505 255 35M * 0 0 AGATACATAGAAAAGCTACTTGACTTTAGGTCAAC hhhhhhhhhhhhhhhhhhhhhhhhhhhXhhhh`hM NM:i:0
-EAS38_8_187_894_354 16 chr1 3282753 255 35M * 0 0 CTGCACTTGTTTAGAGAAGTGCTGTCTACATGAAG dhNhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_219_350_890 0 chr1 3282806 255 35M * 0 0 TTTTGGAACTTAGGCAAGAATGTTCTTTGGCTCCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhPVh NM:i:0
-EAS38_8_185_258_316 16 chr1 3282902 255 35M * 0 0 TGAGAGCTAAATGTAAAGCTCAGTAATGCCAGCTC IJhhhhh^hhhhMhhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_5_912_317 16 chr1 3284777 255 35M * 0 0 CTCTCGCTCTCTCTCTCTCTCCCCTCACTCCTTTC BPWFbChNSRhFhShehOh_hhhhhhhhhhhhhhh NM:i:1
-EAS38_8_119_362_614 0 chr1 3284967 255 35M * 0 0 TGTACCCTGAGATCAAGTACTTATTGCTTTCACTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_276_838_443 0 chr1 3284967 255 35M * 0 0 TGTACCCTGAGATCAAGTACTTATTGCTTTCACTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhahhhh NM:i:0
-EAS38_8_74_720_526 0 chr1 3286259 255 35M * 0 0 CAAATTGTAGAAAATTTGCATGTGTACTGAACACA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhL NM:i:0
-EAS38_8_273_582_300 16 chr1 3289456 255 35M * 0 0 TCTTCAGTTCTTTGTTAAATATATCATCTGGGTCT HhYchhhQhRhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_232_852_815 0 chr1 3290417 255 35M * 0 0 TTTTTTTTTTTAACTTTCATATGTAGTAGTTATTT hhhhhhhhhhhhh^hhhKhhhhhhhGV^hh[MHhh NM:i:2
-EAS38_8_121_748_181 0 chr1 3290799 255 35M * 0 0 ACCACACCCTGCTGCTCCATATTTCTTATCTTTTT hhhhhhhhhhhhhhhhhhhhhhhhhhh\Bhhhhhh NM:i:1
-EAS38_8_36_138_632 0 chr1 3290826 255 35M * 0 0 AGCTTTTTTTTTTTAACAGCTACTGGGTGGTTTGC hhhhhhhhhhhhhhhhhhhhhOhhbhCXHZLI\BF NM:i:1
-EAS38_8_141_369_534 0 chr1 3290833 255 35M * 0 0 TTTTTTTAACAGCTACTGGGTGGTCTGCATAGCTT hhhhhhhhhhhhhhhhhhhhhhhhhhhfPRLdhhS NM:i:0
-EAS38_8_84_402_647 0 chr1 3290833 255 35M * 0 0 TTTTTTTAACAGCTACTGGGTGGTCTGCCTAGCTT hhhhhhhhhhhhhhhhhhhhhhhhhhVhBhThahe NM:i:1
-EAS38_8_169_576_313 16 chr1 3290912 255 35M * 0 0 ATGCTTCTTTCCACAGTTGAGTGGAATTGTAGGGG hPhRWPJhVLhhhhhh[hhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_279_571_717 16 chr1 3290912 255 35M * 0 0 ATGCTTCTTTCCACAGTTGAGTGGAATTGTAGGGG he\hhYhaOYhhThhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_234_793_825 16 chr1 3290951 255 35M * 0 0 AAAAGACATTTCTGAGTTCTAGCACTCTCAGGTCT hhhhRhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_217_210_636 16 chr1 3290952 255 35M * 0 0 AANGACATTTCTGAGTTCTAGCACTCTCAGGTCTG hh;PYhhWXhh^hhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_168_998_377 0 chr1 3290961 255 35M * 0 0 TCTGAGTTCTAGCACTCTCAGGTCTGGCTTTGACA hhhhhhWhhhhhhhhhhhhTe\YThhOIWJaC@A? NM:i:0
-EAS38_8_179_44_982 16 chr1 3290986 255 35M * 0 0 GCCTTTGACATTAGCTTCCTGACAGGCTGGCAGGT ?@[_GhH[hhhhhEhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_210_147_536 0 chr1 3291026 255 35M * 0 0 TCCTGAAGGTCAGGACTGTGCAAAACTGTCAGGCA hhhhhhhhhhhhhhhhhhhhhhQg`hh^hbGYYPH NM:i:0
-EAS38_8_228_906_499 0 chr1 3291047 255 35M * 0 0 AAAACTGTCAGGCAGCTATTTCAGGAGTGCCTTTT hhhhhhhhhhhhhThhh_hhhhUThYZPVED[@C@ NM:i:2
-EAS38_8_223_934_468 16 chr1 3291092 255 35M * 0 0 GCCCTGGATGATTTTTGAATGGGAATAATCCCTAT RXhf\Phh`hhhhhVhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_27_794_86 16 chr1 3291130 255 35M * 0 0 TCCATATAGGCTCATATATTTAAACACCTAGTCAT X@FSSZhhhADhShhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_205_713_101 16 chr1 3291163 255 35M * 0 0 ATTGTTGGTGGCACTGTCTGTAAGGATCACGAACC CEJLUB`WcgZ]hLhheHahhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_269_175_878 16 chr1 3291192 255 35M * 0 0 CAAACCCATTAGAAGGTAACAACATGCTAAAAAAA eChhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_127_466_820 0 chr1 3291247 255 35M * 0 0 GTGAGGGCTTGTGTTCTCTCTGCTTCCTCTGTGTG hhhhhhhhhhhhhhhhhhhhhhhhhV_hTeSWhhh NM:i:0
-EAS38_8_29_659_107 0 chr1 3291649 255 35M * 0 0 TCCTGAGTTGGGAGGACAGATGAGAAGGGCTTTTT hhhhhhhhhhhhhhhXhhhShhh`PFVhALNChJd NM:i:2
-EAS38_8_210_520_140 16 chr1 3299511 255 35M * 0 0 GAAATAAAGAAAATTCTAATCTACAGGCTGACCAT VhhLDhhhhhhhhVLHShhPhfhhhhhhhhhhhhh NM:i:2
-EAS38_8_45_100_198 0 chr1 3299523 255 35M * 0 0 ATTCTAATCTACAGGCTGACCATACTGTATTTCAC hhhhhhhhhhhhhhhhhhhhhhhZhhIh^hhhhHh NM:i:0
-EAS38_8_145_894_137 0 chr1 3299538 255 35M * 0 0 CTGACCATACTGTATTTCACTAATATAATGGTGTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhRChhhU NM:i:0
-EAS38_8_231_634_172 16 chr1 3299568 255 35M * 0 0 GTGACAGTGATGCCAGAGAGCTCTAGCTGTGGCTG MHS?]hVChhPhHVhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_68_279_670 16 chr1 3299606 255 35M * 0 0 TGAATACTGGGTAGAAAATAAAAAAATTTACGGAC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_157_544_34 16 chr1 3299684 255 35M * 0 0 TCATAAGATCGGGTAGTTAGTAAACCCTGCCTAGA ?MhFhhHMRZGSdhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_317_518_457 0 chr1 3299798 255 35M * 0 0 GATTTCTGTCTACTAGATCAAAACCTGATAACATA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhMhh NM:i:0
-EAS38_8_87_383_194 16 chr1 3300173 255 35M * 0 0 AAACTACAAAATTGTGGATGTTTGGCTGTTCTTTT hhhSZhhhhhhKhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_220_990_452 16 chr1 3300259 255 35M * 0 0 TGCACCATCTTAGGAGTGAGGGAGGCAGCTGAGTG NHPUJ]hhSPa`ChhhYhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_168_713_356 0 chr1 3307749 255 35M * 0 0 GGTTAACCCGAAGCCAAACTTTTCTTTGTAATTTC hhhhhhhhhhhhhhhhhRhhhhhhhHhRhhIhhhJ NM:i:1
-EAS38_8_222_724_349 0 chr1 3307749 255 35M * 0 0 GGTTAACCCGAAGCCAAACTTTTCTGTGTAATTTC hhhhhhhhhhahhhh`eGhhhhhhhJhPhNKhhhQ NM:i:0
-EAS38_8_223_971_288 16 chr1 3310176 255 35M * 0 0 AATAATCATCACCTGAATGTCATGATCTAAAGGCT hhChhAhh\Ghhh[hhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_288_770_517 0 chr1 3310786 255 35M * 0 0 AGGTTTTGAGTTTTTGATCCAGAGGCTATGTTTAT hhhhhhhhhhhhhhhhgh\h]hQgQH\FS`HRJEW NM:i:0
-EAS38_8_310_958_947 16 chr1 3311201 255 35M * 0 0 CAATTTTTGATCATTCATCTTGTTTTCTTAACAAT hP\hJhh_Hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_140_291_179 16 chr1 3313701 255 35M * 0 0 ACCGCTGCCTTCCTTTCTTCTCTCCTTCCTTTCTT PW`@dP@hYhKhhhhchh]hZhahhhhhhhhhhhh NM:i:2
-EAS38_8_113_205_724 16 chr1 3318613 255 35M * 0 0 ACCTGGAAGAATTTCATAAAAATTCCCTTCCCAGC HhedLQhhbhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_236_727_634 16 chr1 3318613 255 35M * 0 0 ACCTGGAAGAATTTCATAAAAATTCCCTTCCCAGC Sd]QXehhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_21_827_590 0 chr1 3319045 255 35M * 0 0 TACAAACCAAGAGAAAAATCTGAAAATGAAAAATT hhhhhhhhhhhhhhhhhhhhhh_hhhhhhghhhhh NM:i:0
-EAS38_8_204_62_686 0 chr1 3321977 255 35M * 0 0 AAGCTGGCAATGTTTGGGATATAAACAAGCAAACA hhhhhhhhhhhhhhhhhhhhhhhhhhhahhhh[Yh NM:i:0
-EAS38_8_86_854_652 16 chr1 3324385 255 35M * 0 0 GCAGTGGCTGAGTGATATAACACAGGGATGCAGGT hhhhhhh[hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_192_343_954 0 chr1 3329232 255 35M * 0 0 CTGCCCTTTTTCTCCCTGCCTATTCATTATAGTTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhU NM:i:0
-EAS38_8_6_774_928 0 chr1 3330010 255 35M * 0 0 GCACTGTAGCCAGGAGTGACACACAGCAAGGATGC hhhhhhhhhhhhhhhhhhhhhhhN`hUhhhhT`h? NM:i:0
-EAS38_8_256_461_804 16 chr1 3330063 1 23M11637N12M * 0 0 TTTGTTTGTTTGTTTGTTTGTTTGTTTTGACAGGG dhh@ZhhRhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:2 XS:A:+ NS:i:2
-EAS38_8_288_334_735 0 chr1 3330212 0 35M * 0 0 TTATAGCTATAAAAAGTAACATTCTTTGATTGGTC hhQhhhhhKhhQ`hhNKaXAXUaGQQVLOWKRFC> NM:i:1
-EAS38_8_11_615_231 0 chr1 3330440 255 35M * 0 0 ATTGGTTACAAAAAAGTTAGCTTTAACTTTGTAAC hhhhhhhhhhhhhhhhhhhhhhhhIhhhhTLhehR NM:i:1
-EAS38_8_284_883_215 0 chr1 3330528 255 35M * 0 0 ACTAGGCCTCTAGAGTACTTCTAAATTGAGATATT hhhhhhhhhhhhhhhhhhhhhhYhhhhIWEKh`hh NM:i:0
-EAS38_8_30_530_423 16 chr1 3330584 255 35M * 0 0 AGTAGACTTATAGAGATAAGCATTAAAATTTGTAC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_202_722_286 16 chr1 3330653 255 35M * 0 0 ACTTTGTAACGTTAAAGTGATGTTTCTGGTATTGA NB[KZhhcYhhhdhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_214_253_466 16 chr1 3330653 255 35M * 0 0 ACTTGGTAACGTTAAAGTGATGTTTCTGGTATTGA hSN[DRShhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_4_564_326 16 chr1 3330653 255 35M * 0 0 ACTTTGTAACGTTAAAGTGATGTTTCTGGTATTGA ZXSVTYQhehh\hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_142_357_440 16 chr1 3330660 255 35M * 0 0 AACGTTAAAGTGATGTTTCTGGTATTGATCTTTAA hhhhhdhhhhhhhhhhh_hhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_317_782_44 16 chr1 3330660 255 35M * 0 0 AACGTTAAAGTGATGTTTCTGGTATTGATCTTTAA hhFHbhhhhhhbhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_137_536_758 16 chr1 3330697 255 35M * 0 0 TAATAAATTGTTTAAAATTGGGTTTTGCTAACCAA `hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_129_924_268 16 chr1 3330838 255 35M * 0 0 CAATTCACCTATATATTGTAATTAGGATAATTACA BhhhDhhCZhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_48_834_938 0 chr1 3331062 255 35M * 0 0 GTTGTTCTAAATAAAGATTAAATTCAGAATTTATA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_154_283_922 0 chr1 3331674 255 35M * 0 0 TTAACTAGTAAAGAACAAAAGGCTTTGCAGAAAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh_hhX NM:i:0
-EAS38_8_215_43_278 0 chr1 3331674 255 35M * 0 0 TTAACTAGTAAAGAACAAAAGGCTTTGCAGAAATA hhhhhhhhhhhhhhhhhhh\hhhhhhKhhVONhB@ NM:i:1
-EAS38_8_227_874_535 16 chr1 3341199 255 35M * 0 0 AGACCAAGATGATGGGAACATCTTCTCCACCCCAT =>?NBTPFLEDVHOaEhhhh\hghhYhhhhhhhhh NM:i:2
-EAS38_8_255_514_861 0 chr1 3341232 255 35M * 0 0 ATCAGAATTCCCAAGTCCCTGGGTCTTCAAGTCTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhY^h_RhH NM:i:0
-EAS38_8_135_67_741 16 chr1 3341341 255 35M * 0 0 AACTCAGCTGTTGTATGCTGCCTGGTTGGTGACTC @FHPQGOXhYO[Whhhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_230_743_701 16 chr1 3341490 255 35M * 0 0 GCTTCTGTCCATTTGTTGGGTATGAGTATCTGCAT NhLahhUKhhhhhcWhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_212_374_788 0 chr1 3341507 255 35M * 0 0 GGGTATGAGTATCTGCATCTTACTCTTTCAGCTGC hhhhhhhhhhhhhhhhghhhhhhhhhhhh\hHhh[ NM:i:0
-EAS38_8_250_863_818 0 chr1 3341507 255 35M * 0 0 GGGTATGAGTATCTGCATCTTACTCTTTCAGGTGC hhhhhhhhhhhhfhh[Ph]hh]\^N`XhLQE>LGD NM:i:1
-EAS38_8_48_225_977 0 chr1 3341551 255 35M * 0 0 TTCTCAGAAGGTAGTTATGCTAGGCTCCTGTCTGC hhhhhhhhhhhhhhhhhhhhhhhhOhSYh\MF]hI NM:i:0
-EAS38_8_83_343_929 16 chr1 3341762 255 35M * 0 0 TCCCCTATTTCTCTACTGAAGGAGGACTCTACCAC TRhhhhhhhbhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_96_862_886 16 chr1 3341818 255 35M * 0 0 CCCCATGATTGTTTTCTTCTCCCTCCCATGTTGAA hhhh^hJhhhhhhhhhbhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_134_781_817 0 chr1 3342105 255 35M * 0 0 ACTCTTTAATAGAGTCTCCTGAAGAGGTAAAAATT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_155_230_356 16 chr1 3342124 255 35M * 0 0 TGAAGAGGTAAAAATTTTAATTTTGACAGTCCAAT ]hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_179_463_472 16 chr1 3347662 255 35M * 0 0 TACCCTTGCGTCAAGGTGTGTTTTCTTACTCAAAT OG?[DIQhbAhdhLhhhhRhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_4_219_976 16 chr1 3347662 255 35M * 0 0 TATCCTTGCCTCAAGGTGTGTTTTCTTACTCAAAT hhhhhhhchhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_79_243_815 16 chr1 3349048 0 35M * 0 0 AAAAAGAGAAACCCTGTCTCAGAAAGAAAAAAAAA ]WhAhHh_hhhhhhehhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_8_133_197_589 0 chr1 3349165 255 35M * 0 0 CACCAGTTCTCCTGTGCATCCTCAGGAGAAATCAT hhhhhhhhhhhhhhhhhhhhhhhhhhUhKSPhUJh NM:i:0
-EAS38_8_188_649_421 0 chr1 3351241 255 35M * 0 0 GTAGATGGACAAACATCTCCCTCACGCATTCTCAG hhhhhhhhhhhhhhhhhhhhhhhhhhhhahhhbP> NM:i:0
-EAS38_8_268_213_808 0 chr1 3355908 255 35M * 0 0 ATCTAACTAAGTAAACTATGTTATAGGAAAGAAAT hhhhhhhhhhhhhhhhhhhh^hhhhhhhhhhZhhZ NM:i:0
-EAS38_8_11_161_707 0 chr1 3355956 255 35M * 0 0 TTTGTCACATGATCAGCATAGTAGATGATGTGTCT hhhhhhhhhhhhhhhhhhhhhhhhhhhPhhhhhHh NM:i:0
-EAS38_8_291_670_580 16 chr1 3356011 255 35M * 0 0 GAAGCAGTTAAAATTGTGTGTGTGTGGTTCTGGAT hV_OXh[VIhXNhP^hhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_44_851_834 16 chr1 3356011 255 35M * 0 0 GAAGCAGTTAAAATTGTGTGTGTGTGTTTCTGGAT ECD@MDGhJXDSAChdhPh]hUhbhhEhhhhhHhh NM:i:1
-EAS38_8_105_754_762 0 chr1 3356093 255 35M * 0 0 TATAGATGTAGTTTATCTCCTAATCCCACCCTTCC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_219_312_881 16 chr1 3356191 255 35M * 0 0 TTTAATTACTTTCCCATCAAAGGCCCATTGAGCAG XZNhNLhHhhZhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_299_450_385 0 chr1 3356483 255 35M * 0 0 ATTCTGGTGGGCTTTCGAGTGTTTCAGTTTCATCT hhhhhhhhhhhhhhhhhVhhhhhhhhhhhhhhhAh NM:i:1
-EAS38_8_52_623_649 0 chr1 3356578 255 35M * 0 0 GGAGCATATGTGAGTAAGCAAATGATGTTCTTGGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhh]hEUNE NM:i:1
-EAS38_8_117_306_426 16 chr1 3359531 255 35M * 0 0 TCAGAGTGTCCACCTCATTCCTCTGGGTCAGTCTT @EN_DgWhhhh_hhhhhhdhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_120_120_744 16 chr1 3361583 255 35M * 0 0 CAAAGACAAGTAGGATAATGCTGAAAGCCCAAGCA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_307_422_12 0 chr1 3362018 255 35M * 0 0 CTGAAAAATTACAGTGTTCTTGTACTGGACACTAC hhhhhhhhhhhhhhhdhSahhKDYGhECFJF@TI? NM:i:2
-EAS38_8_101_691_200 0 chr1 3363077 255 35M * 0 0 CTTTTTTCCATTTTAATGTTTGCATGCAAATCTTA hhhhhhhhhhhhhhhhhXhNhh`hhhhhMhhChhI NM:i:2
-EAS38_8_205_648_802 0 chr1 3363077 255 35M * 0 0 CTTTTTTCCATTTTAATGTGTGCATGCAAATGTTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhZ NM:i:0
-EAS38_8_265_441_688 0 chr1 3363150 255 35M * 0 0 CAGGAATCAATCTCAACCACTTTTCATCTTACTCA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhOhhch NM:i:0
-EAS38_8_53_996_162 0 chr1 3363150 255 35M * 0 0 CAGGAATCAATCTCAACCACTTTTCATCTTACTCA hhhhUhh_hYhUhc^LEHALV^]]MIVE_MMB[MO NM:i:0
-EAS38_8_28_805_359 0 chr1 3363388 255 35M * 0 0 CCAACACCTTATTATCACTTATTTTTGTCATTCTA hhhhhhhhhhhhhhhhhhhhhhhhhhIhhhh@hhZ NM:i:1
-EAS38_8_229_300_432 16 chr1 3363412 255 35M * 0 0 TTGTGATGCTATATATGTGTGCATTAACCACTGCC RObh>QWGShUahhhhBUhNhPhhhhhhhhhhhhh NM:i:2
-EAS38_8_247_121_676 16 chr1 3363412 255 35M * 0 0 TTGTCATGCTATATATTTGTGCATTAACCACTGCC QQMhgLRNfhh[hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_180_822_42 16 chr1 3363658 255 35M * 0 0 GAGTAACTGCTGCATGTTAATCTATGTCATCCCTA MXE@dhhIP__Xhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_83_317_544 0 chr1 3364348 255 35M * 0 0 GCATTTCTGAGCCTGGGTGATCTTACTTTATATTC hhhhhhhhhhhhhhhhhhhhhhhhchhhhhhhhhb NM:i:0
-EAS38_8_194_299_688 16 chr1 3364585 255 35M * 0 0 AAGGATGTTATAATTGAATCATATGGAAGTTCTTT ^hh_h_hhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_42_578_279 0 chr1 3364694 255 35M * 0 0 AAGATGTATTTTTATTTGTTTACTGTATAATTTCC hhhhhhhhhhhhhhhhhhhhhhhhChhhh_hhCP\ NM:i:2
-EAS38_8_309_762_904 16 chr1 3364864 255 35M * 0 0 AAAAGGACATCTGAATTACCTACTTGTTTTTATCA hhhhhFhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_236_498_116 16 chr1 3364885 255 35M * 0 0 ACTTGTTTTTATCAGGTTGGTCTGTAAGCATATCT LI_hhQhhMahh\hhbhFhhh\hhhhhhhhhhhhh NM:i:0
-EAS38_8_184_968_83 0 chr1 3365051 255 35M * 0 0 TAATTGCCAGGAGTTCATTGTTTTCCATATTGTCT hhhhhhhhhhhhhhhhfhhhhhhhh]EhVhhHhUh NM:i:0
-EAS38_8_194_34_599 16 chr1 3367203 255 35M * 0 0 ATTGTGGATATAAGTGGAGAAAGAGCAAGAAAAAA hhHhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_73_896_111 16 chr1 3367203 255 35M * 0 0 ATTGTGGATATAAGTGGAGAAAGAGCAAGAAAAAA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_115_579_578 16 chr1 3369573 255 35M * 0 0 TCAGAGCATTTGGATTTTGGTCTTTAGATTAAGGT ^hhhhhhhhXhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_260_546_322 16 chr1 3369573 255 35M * 0 0 TCAGAGCATTGGGATTTTGGTCTTTAGATTAAGGT >>NELH=IJ@@@QIMBDDKOS\KJfhhh[Phhhhh NM:i:1
-EAS38_8_168_10_541 16 chr1 3375680 255 35M * 0 0 CCGTGCAGACATTCTGATGTTGGGTAATATCAAAT LT>IKNhhhWhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_8_316_251_752 0 chr1 3377312 255 35M * 0 0 TCACAATATTGTCTATACTTCTAAACATCCTCAGA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhchhh NM:i:0
-EAS38_8_127_130_231 0 chr1 3379889 255 35M * 0 0 AATAAATTTCTCTTGTTTGCAAGCTATCTACTCTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhbhhhhe NM:i:1
-EAS38_8_262_614_438 0 chr1 3379889 255 35M * 0 0 AATAAATTTCTCTTGTTTGCAAGCTATCTACTCTA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhA NM:i:1
-EAS38_8_152_675_620 0 chr1 3379983 255 35M * 0 0 ATCACACTTCAATTTTCATTTTCCAGCAAAAGCTT hhhhhhhhhhhhhhhhhhhhhhhhhhhghZhhhhh NM:i:2
-EAS38_8_315_641_621 16 chr1 3380977 255 35M * 0 0 CATTTATTCTATGTCAATTTATCTTTTGAGTATAA hhhhhhahhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_223_839_518 16 chr1 3381656 255 35M * 0 0 GTCCTTTTTCTAGTGTCGTGTTTAAGCTCCCGTGA PVLMUG`YLSVhaNhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_189_893_589 16 chr1 3382043 255 35M * 0 0 GCAGAGCCTCTGTGTCATTGCCTGGCAGGTAGGAG =L`KeShhhhdhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_8_228_882_739 0 chr1 3383793 255 35M * 0 0 TGGTGAGTATTGGAACGACTAAATCAGTGTATTAA hhhhhhhhhhhhhhh]hhfhhhh]^]hehbghNHO NM:i:0
-EAS38_8_290_281_824 16 chr1 3386732 255 35M * 0 0 GTAGAAAACTGGATTTTTTTTTTTTGGTGATATAG `GUEhEhhhd\hhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffdiff_in2.sam
--- a/test-data/cuffdiff_in2.sam
+++ /dev/null
@@ -1,400 +0,0 @@
-EAS38_1_126_860_867 16 chr1 3009675 0 35M * 0 0 ATAGTCCCTTACTGCTTTTAGTATTCTATCTTTAT WFGAeC\gVShhhLh`hhPbPhhhhhhhhhhhhhh NM:i:2
-EAS38_1_125_842_97 0 chr1 3023056 0 35M * 0 0 ATCTTCTTCAATTTGTTTCTTCAGAGACTTTAATT hhhhhhhhhhhhhhhhhhhhhhhJhhNhhh_KINh NM:i:2
-EAS38_1_261_52_728 16 chr1 3035247 0 35M * 0 0 AATCCCCCACCCCACAGGAACAAAGTCCTGATGCA @???GIH@C?HXINLQJ=VVhhgTFHfhYhhJLhb NM:i:2
-EAS38_1_71_500_217 16 chr1 3081731 0 35M * 0 0 AGGAGATAAATAACTAATAAAAAATGAAAAAAAAA h?DhLhFhfhKhRFhhhShhhhhhThhhhhhhhhh NM:i:2
-EAS38_1_2_666_566 0 chr1 3111450 255 35M * 0 0 CCACTCACAAGACAAGACCAGGATCCTGGAGAGAT hhhhhhhhhhhhhhNh^Yh]d]GRNVYURK^JU>I NM:i:0
-EAS38_1_220_990_991 0 chr1 3111546 255 35M * 0 0 AAAAGCTGAGAGTCAGCATGAATCAAGAGATAGAA hhchhMabNhP_>BKXQSNKDRD?@@TBJJ=GL@G NM:i:1
-EAS38_1_133_518_728 0 chr1 3111550 255 35M * 0 0 GCTGAGAGTCAGCATGAATCCAGAGATAGAAAAAG hhhhhhhhhhhhhhhhhhhOhQhhhNL^ZT[PLNN NM:i:0
-EAS38_1_219_471_934 0 chr1 3117684 255 35M * 0 0 TGTCCTTTGGCTTACAGAAGTTTTATAATTTTATG hhhhhhhhhhhhhhhhhhhhhhhhRhhehhhh]hH NM:i:0
-EAS38_1_180_265_430 16 chr1 3131249 0 35M * 0 0 TGATCAGCCCTTTGGCATTCCTCAGTTGAGAATTC GICHVhhCY`\TYhhhh[fdhhhhhhhhhhhhhhh NM:i:2
-EAS38_1_155_516_677 0 chr1 3137065 0 35M * 0 0 CTGGAATTATGTGATTATAATTTTCTTATCATTTT hhhhhhhhhhhhhhhhhhhhhhhhhhh`Dhhhhhh NM:i:1
-EAS38_1_156_788_924 0 chr1 3137065 0 35M * 0 0 CTGGAATTATGTGATTATAATTTTCTTAGCATTTT hhhhhhhhhhhhhhhhhhhhhhhhbhhhh]Shhhh NM:i:0
-EAS38_1_219_907_956 0 chr1 3137065 0 35M * 0 0 CTGGAATTATGTGATTATAATTTTCTTAGCATTTT hhhhhhhhhhh\hhhhhhhhRhhh^hhg`h\hhhh NM:i:0
-EAS38_1_224_924_816 0 chr1 3137074 0 35M * 0 0 TGTGATTATAATTTTNTTAGCATTTTCTTCGTAAA hhhhhhhhhhhhhhh;hhhhh`hhhhhhhXhhhg] NM:i:2
-EAS38_1_128_932_926 16 chr1 3137133 0 35M * 0 0 GTTGGTGTATAGTAAAAAGTAAAGAAATTCTGAGA XYV[Lhfhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_146_271_903 16 chr1 3137133 0 35M * 0 0 TTTGGTGTATAGTAAAAAGTAAAGAAATTCTGAGA HVhT[`hhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_127_823_362 0 chr1 3137183 0 35M * 0 0 GATAATACATATATACATATGCAGTGTGTGTGCCA hhhhhhhhhhhhhhhhhhhhhhhXhhhhhhhNU[H NM:i:0
-EAS38_1_282_34_255 16 chr1 3137183 0 35M * 0 0 GATAATACATATATAAATATGCAGTGTGTGTGCCA KhNhhLhQh\h`hJhCh`h^hLhhdhhhhhhhheh NM:i:1
-EAS38_1_215_971_567 0 chr1 3137204 0 35M * 0 0 CAGTGTGTGTGCCAGTGGTGTTAACAATACTAATA hhhhh[hhhhhhhhh\hSQeLYcVFKGAKH]XD^H NM:i:1
-EAS38_1_143_6_639 16 chr1 3137450 0 35M * 0 0 ATGTTCCCACACGGTCTATCTCCCTGACAAATCCC RH?>EJUcHhhILIhFhhYShb`hhhhhhhhchhh NM:i:2
-EAS38_1_132_603_749 0 chr1 3154107 255 35M * 0 0 TATATTTGGAAAAAAAAAGAAAGGAGTGTAGAGTC hhhhhhhhhhhhhhhhhhhhhhhhhhehhhhPhSS NM:i:0
-EAS38_1_238_595_598 0 chr1 3178632 0 35M * 0 0 GCTTTTTGCTTTTTGCTTTTTGCTTTTTGCTTTTT hhhhhhhhhhhhhhdhhhhhhOhhhhhhLXhhhhh NM:i:0
-EAS38_1_238_595_598 0 chr1 3178639 0 35M * 0 0 GCTTTTTGCTTTTTGCTTTTTGCTTTTTGCTTTTT hhhhhhhhhhhhhhdhhhhhhOhhhhhhLXhhhhh NM:i:0
-EAS38_1_238_595_598 0 chr1 3178646 0 35M * 0 0 GCTTTTTGCTTTTTGCTTTTTGCTTTTTGCTTTTT hhhhhhhhhhhhhhdhhhhhhOhhhhhhLXhhhhh NM:i:0
-EAS38_1_238_595_598 0 chr1 3178653 0 35M * 0 0 GCTTTTTGCTTTTTGCTTTTTGCTTTTTGCTTTTT hhhhhhhhhhhhhhdhhhhhhOhhhhhhLXhhhhh NM:i:0
-EAS38_1_118_1000_212 0 chr1 3179061 0 35M * 0 0 ATGTGATTTTAAATCATAGTCTTGCTTTTCCATTG hhhhhhhhhhhhghhhEMDPKhhLNh[hhMPNETJ NM:i:2
-EAS38_1_311_90_296 16 chr1 3179539 255 35M * 0 0 ACATAGGAAATGGAAGAGTACTTTATTATTATTAT bEhIhhhhTCNhhhhhhhVhRQhhhhhhhhhhhhh NM:i:1
-EAS38_1_221_489_194 16 chr1 3183282 3 35M * 0 0 ACTGACAGAAAAGAGACAGAGGTAGGACTTCTAGG >>FL[@RL@^WSRYUP@`UZeSLhhRQbOGWThhh NM:i:2
-EAS38_1_221_489_194 16 chr1 3183945 3 35M * 0 0 ACTGACAGAAAAGAGACAGAGGTAGGACTTCTAGG >>FL[@RL@^WSRYUP@`UZeSLhhRQbOGWThhh NM:i:2
-EAS38_1_205_642_159 16 chr1 3186543 255 35M * 0 0 CACATGCCTTTTTCATTTTTTCCAAGTGCCATCTG KhUhSHT]VS]_hFhhMhDbheHhhhhhhhhhhhh NM:i:0
-EAS38_1_26_282_635 16 chr1 3188051 255 35M * 0 0 TTCTGATCCTCAGGATCTGGAGTTACAGATGGTTG ECaSghKhh]ZhhhhdhVhhhh]hhhhhhhhhhhh NM:i:0
-EAS38_1_221_487_440 16 chr1 3188179 255 35M * 0 0 TTACTAAATTTTGTAATACTACTTAGTCTGGAAAA Oge[WhhhTKRShhhhbhhYhhchhh]hhhhhhhh NM:i:0
-EAS38_1_7_602_714 16 chr1 3188938 255 35M * 0 0 GACTGTCATTACATTATTTTAGTAGTTGTATTTTC A\h^SLhhChQhhhhhhhhUhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_239_803_441 16 chr1 3189316 255 35M * 0 0 AGATGTATCATAGCTCAGAAAGTACATTTGTAAGA hhhVhWhRJhYhh^Wbhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_318_649_84 16 chr1 3189316 255 35M * 0 0 AGATGTATCATAGCTCAGAAAGTACATTTGTAAGA hhh\hhhhKhhhhKMhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_178_556_269 0 chr1 3189808 255 35M * 0 0 CTTTTTTTAAAATGACCACAGTGTACTTTATTTAA hhhhhhhhhhhhhhhhhhhhLhhhXhhhhZhhhhX NM:i:2
-EAS38_1_184_810_767 16 chr1 3189830 255 35M * 0 0 GTACTTTATTTAATGATTTTTGTACTTTGTGTTGC dhah]hhhhhhhhhchh_hhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_307_56_994 16 chr1 3189841 255 35M * 0 0 AATGATTTTTGTACTTTGTGTTGCAATAAAATAAA hh[Shhhhhh`hhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_1_924_497 16 chr1 3189853 255 35M * 0 0 ACTTTGTGTTGAAATAAAATAAAAAAAAAATCTAC SNT[Za]ahh]Lhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_95_808_182 0 chr1 3189880 255 35M * 0 0 AAATCTACAAAATTCAAATATATAAAATTTCAAGT hhhhhhhhhhhhhhhehhhhhhhhhMhhhhh\h^h NM:i:0
-EAS38_1_43_924_188 0 chr1 3189887 255 35M * 0 0 CAAAATTCAAATATATAAAATTTCAAGTTTTCTTT hhhhhhhhh^Xhhhh?hh[RhhhhOMDhhhhhhhh NM:i:0
-EAS38_1_11_826_352 16 chr1 3189890 255 35M * 0 0 AATTCAAATATATAAAATTTCACGTTTTCTTTGTT hhIQAhhhShchchhhhUNU[hChhehhhhbhAhh NM:i:2
-EAS38_1_131_730_378 16 chr1 3189892 255 35M * 0 0 TTCAAATATATAAAATTTCAAGTTTTCTTTCTTTT HIhhhhhhhhhhhhhhhZhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_317_700_555 16 chr1 3189893 255 35M * 0 0 ACAAATATATAAAAGTTCAAGTTTTCTTTCTTTTA ?hhhhhh[hThhhhHhYhEhhhhhhhhhhhhhhhh NM:i:2
-EAS38_1_46_519_952 0 chr1 3189903 255 35M * 0 0 AAAATTTCAAGTTTTNTTTCTTTTAAAGTTTTACA hhhhhhhhhhhhhhh;hhhhhhhhhhhhhhhhhPf NM:i:1
-EAS38_1_26_849_836 0 chr1 3189906 255 35M * 0 0 ATTTCAAGTTTTCTTTCTTTTAAAGTTTTACAAGA hhhhhhhhhhhhhhhhhhhhhdhhhhhhhhhhNXU NM:i:0
-EAS38_1_271_964_726 0 chr1 3189906 255 35M * 0 0 ATTTCAAGTTTTCTTACTTTTAAAGTTTTACAAGA hhhhhhhhhhhhhhhCXhhhhhhhHhhhhhhVhhh NM:i:1
-EAS38_1_305_225_753 16 chr1 3189909 255 35M * 0 0 TCAAGTTTTCTTTCTTTTAAAGTTTTACAAGAAAA Zhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_210_231_735 16 chr1 3189912 255 35M * 0 0 AGTTTTCTTTCTTTTAAAGTTTTACAAGAAAAAAA hhVhhhhhh_hhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_210_55_110 0 chr1 3189915 255 35M * 0 0 TTTCTTTCTTTTAAATTTTTACAATAAAAAAAATC hhhhhhhhhhhhUPh\hhhhdhLRcCLTRW@FMhh NM:i:2
-EAS38_1_230_130_609 16 chr1 3189915 255 35M * 0 0 TTTCTTTCTTTTAAAGTTTTACAAGAAAAAAAATC TDMO]K^FLYWWhhhh[S^Rhhhh^hhhhhhhhhh NM:i:0
-EAS38_1_203_262_383 16 chr1 3189917 255 35M * 0 0 TCTTTCTTTTAAAGTTTTACAAGAAAAAAAATCAG ]hJh[ahhhPhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_23_872_103 0 chr1 3189918 255 35M * 0 0 CTTTCTTTTAAATTTTTACAATAAAAAAAATCAGA hhhhhhhhhb_[Dhhhhhh[XAT[hUfKFhhVTM> NM:i:2
-EAS38_1_74_546_492 0 chr1 3189937 255 35M * 0 0 AAGAAAAAAAATCAGATAACCGAGGAAAATTCTTC hhhhhhhhhhhhhhh`h]hhhhThaRPOOhhBhhX NM:i:1
-EAS38_1_177_466_463 0 chr1 3189943 255 35M * 0 0 AAAAATCAGATAACCGAGGAAAATTATTCATTATG hhhhhhhhhhhhhhhhOhMSIIhhhdhh\hhhfhB NM:i:0
-EAS38_1_326_846_82 0 chr1 3189943 255 35M * 0 0 AAAAATCAGATAACCGAGGAAAATTATTCATTATT hhhhhhhhhhhhhhhh]hJdRdhhhZhhhYhbhhG NM:i:1
-EAS38_1_235_891_810 0 chr1 3189957 255 35M * 0 0 CGAGGAAAATTATTCATTATGAAGTACTACTTTCC hhhhhhhhhhhhhhhhhhhhhhhhh_HhOJhhPWI NM:i:0
-EAS38_1_73_865_289 16 chr1 3189961 255 35M * 0 0 GAAAATTATTCATTATGAAGTACTACTTTCCACTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_201_984_898 0 chr1 3189963 255 35M * 0 0 AAATTATTCATTATGAAGTACTACTTTCCACTTCA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_37_723_474 16 chr1 3189968 255 35M * 0 0 ATTCATTATGAAGTACTACTTTCCACTTCATTTCA hHEJhFThZhhhhXhUShhhhhhhhhXhhhhhhhh NM:i:0
-EAS38_1_183_791_724 0 chr1 3189973 255 35M * 0 0 TTATGAAGTACTACTTTCCACTTCAGTTCATCACA hhhhhhhhhhhhhhhhhafhhhhdWBhhPYhHPh[ NM:i:1
-EAS38_1_69_87_770 16 chr1 3189978 255 35M * 0 0 AAGTACTACTTTCCACTTCATTTCATCACAAATTG hhJhghhhhhhghhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_54_211_781 16 chr1 3189984 255 35M * 0 0 TACTTTCCACTTCATTTCATCACAAATTGTAACTT hghhhLhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_203_766_573 16 chr1 3189985 255 35M * 0 0 ACTTTCCACTTCATTTCATCACAAATTGTAACTTA SQPbUhhZhhhhhhhWhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_195_866_158 0 chr1 3189991 255 35M * 0 0 CACTTCATTTCAACACAAATTGTAACTTACTTAAC hhhhhhRhhhhh@hchHOThhRh[F`hhPShbNSI NM:i:1
-EAS38_1_122_739_820 16 chr1 3190001 255 35M * 0 0 CATCACAAATTGTAACATACTTAACTGACCAAAAA hhXhfYhhhhSORhhhAghhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_144_950_152 16 chr1 3190008 255 35M * 0 0 AATTGTAACTTACTTAACTGAACAAAAAAACTATG hhIIc_hhI[\hHghhhYhhhHhhhhhhhhhhhhh NM:i:1
-EAS38_1_168_613_587 0 chr1 3190008 255 35M * 0 0 AATTGTAACTTACTTAACTGACCAAAAAAACTATG hhhhhhhhhhhhhhhhhhhhgh`SNhfhhRahZf\ NM:i:0
-EAS38_1_134_699_616 16 chr1 3190013 255 35M * 0 0 TAACTTACTTAACTGACCAAAAAAACTATGGTACT hhhQhMhhehhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_210_777_789 0 chr1 3190014 255 35M * 0 0 AACTTACTTAACTGACCAAAAAAACTATGGTACTG hhhhhhhhhhhhhhhWfh\`hHhhShgYhXGZIQU NM:i:0
-EAS38_1_66_446_787 0 chr1 3190014 255 35M * 0 0 AACTTACTTAACTGACCAAAAAAACTATGGTACTG hhhhhhhhhhhhhhhhhhhhhhh]dhhhhdghShh NM:i:0
-EAS38_1_179_978_676 16 chr1 3190032 255 35M * 0 0 AAAAAACTATGGTACTGCAGTATAGCAAATACTCC hhhhhghWhZhFhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_308_776_503 16 chr1 3190032 255 35M * 0 0 AAAAAACTATGGTACTGCAGTATAGCAAATACTCC hhhhhh^?hRhThhhghbhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_172_693_734 16 chr1 3190040 255 35M * 0 0 ATGGTACTGCAGTATAGCANATACTCCACACACTG hLD?UFaLLhaJhhhh[hh;hhhhhhhhhhhhhhh NM:i:1
-EAS38_1_239_423_396 16 chr1 3190040 255 35M * 0 0 AGGGTACTGAAGTATAGCAAATACTCCACACACTG _AH?>LADTCZh^h]hhDhhhZhhehhhhhhhhhh NM:i:2
-EAS38_1_284_912_582 16 chr1 3190042 255 35M * 0 0 GGTACTGCAGTATAGCAAATACTCCACACACTGTG LhhhhhhhhhhhhhhWhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_209_687_576 0 chr1 3190073 255 35M * 0 0 TGTGCTTTGAGCTAGAGCACTTGGAGTCACTGCCC hhhhhhhhhhhhhhhdhhZdhhYhPMhRPIeMWGP NM:i:0
-EAS38_1_185_490_551 16 chr1 3190085 255 35M * 0 0 TAGAGCACTTGGAGTCACTGCCCAGGGCAGCAGCC FJDFJGJJODb\`hJQ_hNghhhhhhhh`hhhhhh NM:i:0
-EAS38_1_65_838_419 0 chr1 3190102 255 35M * 0 0 CTGCCCAGGGCAGCAGCCTCCAACCAAGAAAGACA hhhhhhhhhhh]_hKhhchceBdGaOCG@?BGIIP NM:i:0
-EAS38_1_323_255_975 0 chr1 3190107 255 35M * 0 0 CAGGGCAGCAGCCTCCAACCAAGAAAGACACACTT hhhhhhhh\hhUShNYh]@Uh\hMXMaJ?YRRBFH NM:i:0
-EAS38_1_296_538_461 0 chr1 3190126 255 35M * 0 0 CAAGAAATACACACTTACAAGTTGAATTCTAAAGG hhhhhhhhhhhhhhhhhh]hhhhh\hhhhhMhbhh NM:i:1
-EAS38_1_132_195_514 16 chr1 3190129 255 35M * 0 0 GAAAGACACACTTACAAGTTGAATTCTAAAGGAAG chbhhhShFhhYhhghhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_155_895_725 16 chr1 3190140 255 35M * 0 0 TTTCAAGTTGAATTCTAAAGGAAGGTCTGGTTATG VhO[ghWSchhh_hZhhhhhhhhhXhhhhhhhhhh NM:i:1
-EAS38_1_193_609_633 16 chr1 3190140 255 35M * 0 0 TTACAAGTTGAATTCTAAAGGAAGGTCTGGTTATG Q`hbhhh[hhhhShhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_135_816_228 16 chr1 3190142 255 35M * 0 0 AAAAGTTGAATTCTAAAGGAAGGTCTGGTTATGTG fC_]SH_VhhIABLhhhhfhhhWfZhhhhhhhhhh NM:i:1
-EAS38_1_145_593_539 0 chr1 3190150 255 35M * 0 0 AATTCTAAAGGAAGGTCTGGTTATGTGGGGTTGTA hhhhhhhhhhhhhhhhhhhhhhhhQh`ShhhhhAH NM:i:1
-EAS38_1_121_577_810 16 chr1 3190177 255 35M * 0 0 GGGTTGGAGTATGTATATCTATATATCTCTATATA KJM]OSdhbXhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_194_207_828 0 chr1 3190207 255 35M * 0 0 ATATATATTTACATCAAAGAATTTAATAACTCATT hhhhhhhhhhhhhhhhhhhhhhhhchhTh_h_`hh NM:i:0
-EAS38_1_113_803_974 0 chr1 3190221 255 35M * 0 0 CAAAGAATTTAATAACTCATTTAAATTTTTGTTTC hhhhhhhhhhhhhhhchQhhhhhgOhh_hhh_hhL NM:i:0
-EAS38_1_160_812_510 16 chr1 3190244 255 35M * 0 0 AATTTTTGTTTCAAATAAAATTCCAAATACACTTG hhWOhG]h^hhQhhhhhhhhh_\hhhhhhhhBhhh NM:i:1
-EAS38_1_40_88_508 16 chr1 3190249 255 35M * 0 0 TTGTTTCAAATAAAATTCCAAATACATTTGTACAA QhhgVhdhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_84_935_631 16 chr1 3190249 255 35M * 0 0 TTGTTTCAAATAAAATTCCAAATACATTTGTACAA ^]hJhZWhhhhhhhhhUhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_36_762_603 0 chr1 3190263 255 35M * 0 0 ATTCCAAATACATTTGTACAATGTTTACAAAGTAA hhhhhhhhhhhhhhhhhhhhhh^hhhhahX\]_hb NM:i:0
-EAS38_1_16_788_728 16 chr1 3190265 255 35M * 0 0 TCCAAATACATTTGTACAATGTTTACAAAGTAAGA @hEhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_172_782_398 16 chr1 3190269 255 35M * 0 0 AATACATTTGTACAATGTTNACAAAGTAAGAGACA hhZhhhaZhhWhhhhhheh;hThhhhehhhhhhhh NM:i:1
-EAS38_1_319_78_862 16 chr1 3190274 255 35M * 0 0 ATTTGTACAATGTTTACAAAGTAAGAGACAGGACT dLhZM_ehdhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_27_817_428 16 chr1 3190276 255 35M * 0 0 TTGTAAAATGTTTACAAAGTAAGAGACAGGACTGG VPhchChh_ghfhhEhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_188_256_713 0 chr1 3190325 255 35M * 0 0 AGGCCAGGCACCGTGATGTCCGGGTGATATATCTT hhhhhhhhhhhhhhhKhhaMhUhhNgA_E[GhM[G NM:i:0
-EAS38_1_315_859_502 16 chr1 3190329 255 35M * 0 0 CAGGAACCGTGATGTCCGGGTGATATATCTTCACG BNSIKHNI\SK]VdXZR`Uhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_152_381_800 16 chr1 3190355 255 35M * 0 0 ATCTTCACGTTGCCTGCACACACCTTATTTCTGAA ZVhQIhhhhhhXhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_282_558_872 0 chr1 3190364 255 35M * 0 0 TTGTCTGCACACACCTTATTTCTGAAATGGAGAGA hhh=hhhhhhhhh_hhhhhhhYhh`hhhhhQhhhC NM:i:1
-EAS38_1_215_759_830 0 chr1 3190407 255 35M * 0 0 AGAATGTCACCGACTATGCATCAGAATACTATGTA hhhhhhhhhhhhhhhhhhh_hh[hUWhhbh^hhXc NM:i:0
-EAS38_1_277_471_798 16 chr1 3190412 255 35M * 0 0 GTCACCGACTATGCATCAGAATACTATGTACAGTT KJYK\eYhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_279_405_802 16 chr1 3190418 255 35M * 0 0 GACTATGCATCAGAATACTATGTACAGTTGAAGTT Chhhhhhhhhhhhhhhhhhhhhhhhh`hhhhhhhh NM:i:0
-EAS38_1_75_573_457 16 chr1 3190428 255 35M * 0 0 CAGAATACTATGTACAGTTGAAGTTAGGGAGCTGA Zhdhh_dhYhRh\hhhhUKhhhhhUhhhhhhhhhh NM:i:0
-EAS38_1_238_427_419 16 chr1 3190444 255 35M * 0 0 GTTGAAGTTAGGGAGCTGAGAACCTAGTGGTCTGT XKEQdhhNKZhhhhhhdhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_24_788_817 0 chr1 3190444 255 35M * 0 0 GTTGAAGTTAGGGAGCTGAGAACCTAGTGGGCTGT hhhhhhhhhhhhhQhHhhUeK_AGXKhNfe>=ITO NM:i:1
-EAS38_1_307_22_417 16 chr1 3190449 255 35M * 0 0 AGTTAGGGAGCTGAGAACCTAGTGGTCTGTTCTCT KU@DX`XWbV@JhghhTETVhh^hTWh_hh[hhhh NM:i:0
-EAS38_1_104_731_910 0 chr1 3190455 255 35M * 0 0 GGAGCTGAGAACCTAGTGGTCTGTTCTCTTCTGGT hhhhhhhhhhhJYhhhhhhZOhhhhBhF\hFhhaO NM:i:0
-EAS38_1_189_367_978 16 chr1 3190466 255 35M * 0 0 CCTAGTGTTCTGTTCTCTTCTGGTTTGTCTTCATC HhCMIbQEShcKTYhhh\hhhYPhhhhhhhhhhhh NM:i:1
-EAS38_1_288_697_269 0 chr1 3190470 255 35M * 0 0 GTGGTCTGTTCTCTTCTTGTTTGTCTTCATCTACC hhhhhhhhhhhhhhhhhBChhhDhhhhhQhhhI?c NM:i:1
-EAS38_1_239_232_371 16 chr1 3190490 255 35M * 0 0 GTGTCTTAATCTACCAGCTATTACTCCTCTTTTGC DKK?ADHAhKCIhVhhhB_hchhhbhhZhhhhhhh NM:i:2
-EAS38_1_17_329_620 16 chr1 3190509 255 35M * 0 0 ATTACTCCTCTTTTGCTCAGAGATAAATTTAAAAT h^E_hMhchhhThVhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_145_66_863 0 chr1 3190520 255 35M * 0 0 TTTGCTCAGAGATAAATTTAAAATACAAACATTGG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhc NM:i:0
-EAS38_1_318_476_736 0 chr1 3190562 255 35M * 0 0 AAGGAGAAAAGCACAAAATATTTAAGGCAAATTAA hhhhhhhhhhhhhhhhhhhhhhhhfhh^hF\hhhH NM:i:0
-EAS38_1_91_887_139 16 chr1 3190577 255 35M * 0 0 AAATATTTAAGGCAAATTAAGCAAATATGTACAGT hhhhhK^ThhZhThhh\hhhhZhhhhhhhhhhhhh NM:i:0
-EAS38_1_42_628_869 16 chr1 3190582 255 35M * 0 0 TTTAAGGCAAATTAAGCAAATATGTACAGTCTCTT EYEhhBDYhhh^hhhLhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_266_296_122 16 chr1 3190587 255 35M * 0 0 GGAAAATTAAGAAAATATGTACAGTCTCTTTGTGC hUJhhh@ehhhFhhhShIhehhhh`h\hhbhhhhh NM:i:2
-EAS38_1_296_47_651 0 chr1 3190588 255 35M * 0 0 GCAAATTAAGCAAATATGTACAGTCTCTTTTTTCC hhhhhhhhhhhhhhhhhhhhh[hhhhhhhhDhIRE NM:i:2
-EAS38_1_298_622_554 16 chr1 3190612 255 35M * 0 0 CTCTGTGTGCCAGGAGGATGTGACTTTCTTTTTAA QXfIBXhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_55_346_335 16 chr1 3190613 255 35M * 0 0 TCGGTGTGCCAGGAGGATGTGACTTTCTTTTTAAA KABCGhGh@hhhhhhhhhh^hhhhhhhhhhhhhhh NM:i:2
-EAS38_1_144_104_681 16 chr1 3190646 255 35M * 0 0 AATCCCAAACCATGCTTTAAAAAATTCAAATAAAG hhVhJThhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_307_505_905 0 chr1 3190650 255 35M * 0 0 CCAAACCATGCTTTAAAAAATTCAAATAAAGCAAG hhhhhhhhhhhhhhhhhhhhhhhhShhhh_h\`hh NM:i:0
-EAS38_1_4_468_915 0 chr1 3190667 255 35M * 0 0 AAATTCAAATAAAGCAAGTCTGGTGTGAGTTGGGT hhhhhhhhhhhhhhhhhhhhhhhahfhJhhhhhha NM:i:0
-EAS38_1_177_100_872 0 chr1 3190682 255 35M * 0 0 AAGTCTGGTGTGAGTTGGGTTGCTTGTGTTGTTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhThhhhh NM:i:0
-EAS38_1_201_448_983 0 chr1 3190733 255 35M * 0 0 TGTTTTGCACAAAATAACCATTTGGAATTTGCAGT hhhhhhhahhhhhhhhhZMhhhhhhNhhhhXGXhH NM:i:0
-EAS38_1_205_905_511 16 chr1 3190740 255 35M * 0 0 AACAAAATAACCATTTGGAATTTGCAGTGGAATAA hhFhhhhahhhhhhahhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_22_834_621 0 chr1 3190741 255 35M * 0 0 ACAAAATAACCATTTGGAATTTGCAGTGGAATAAT hhhhhhhhhhhhhhhhhYhhhhhh]h]h[NVhI`h NM:i:0
-EAS38_1_297_847_594 16 chr1 3190753 255 35M * 0 0 TTTGGAATTTGCAGTGGAATAATTTGTTAATTGTG `KYZ\hX^dhYhhhhbhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_105_929_305 16 chr1 3190768 255 35M * 0 0 GGAATAATTTGTTAATTGAGAAGTGTATGGTTTTG hhhhhhhQ]hhhhhh_hhEhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_323_29_609 0 chr1 3190771 255 35M * 0 0 ATAATTTGTTAATTGTGAAGTGTATGGTTTTGTAT hhhhhhhhhhhhhhhhhhhOhhhhhhhhhhh@hGh NM:i:0
-EAS38_1_174_674_495 0 chr1 3190781 255 35M * 0 0 AATTGTGAAGTGTATGGTTTTGTATTTTTAAACCA hhhhhhhhhhhhhhhhhhhhhFhhhhhhLUPaeSG NM:i:1
-EAS38_1_156_965_73 16 chr1 3190814 255 35M * 0 0 CAAAAAACAGTAGCTGAGGTAGTTAAATGTGAAAC DhhhCghNhhhhhRhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_264_136_776 0 chr1 3190842 255 35M * 0 0 GTGAAACTTACACAACTTAAAATAATGAGAGAATG hhhhhhhhhh`hbhhYhhbh_eh_hhbM\O]IVYR NM:i:0
-EAS38_1_269_103_855 16 chr1 3190853 255 35M * 0 0 ACAACTTAAAATAATGAGAGAATGGAGAACCAATG ShhhhhXhhhhchhLhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_133_823_893 0 chr1 3190856 255 35M * 0 0 GCTTAAAATAATGAGAGAATGGAGAAACAATGTAA hhhhhhhhhhhhhhhbhhVhhhahQZ@KZhSUKgH NM:i:2
-EAS38_1_316_626_26 0 chr1 3190872 255 35M * 0 0 GAATGGAGAACCAATGTAAGGAGCCCAGACTCTTG hhhhhhhhhh]hhhhh^hXNhhXLcGGFEMVIL\A NM:i:0
-EAS38_1_14_936_623 0 chr1 3190882 255 35M * 0 0 CCAATGTAAGGAGCCCAGACTCTTGCCATCTGGGA hhhhhhhhdhhhhYTbFhTWehhNJdKDJVREM?E NM:i:1
-EAS38_1_112_85_814 16 chr1 3190885 255 35M * 0 0 ATGTAAGGAACCCAGACTCTTGCCATCTGGAAGCA dBCDhhRNh?RhWhWhhWhZh[hhhhhhhhhhhhh NM:i:1
-EAS38_1_153_136_402 16 chr1 3190885 255 35M * 0 0 ATGTAAGGAGCCCAGACTCTTGCCATCTGGAAGCA QUhWhhh[hTahhhhQhhUhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_267_293_629 16 chr1 3190891 255 35M * 0 0 GGAGCCCAGACTCTTGCCATCTGGAAGCAGGCTCA Zg]YhEhhhhfd`hZhJhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_60_948_719 16 chr1 3190944 255 35M * 0 0 TACCCAGAAAAACATTTGTTCTTTTGGATGCCATT BAHQQhFehhhRhUPKJVf\hh^bWh_hhhhhhhh NM:i:0
-EAS38_1_279_273_497 0 chr1 3190975 255 35M * 0 0 CATTAGTTCAGCCAGTGTCAACATGACTAGTGGTT hhhhhhhhhhhhhhhZYhhhhahhh`Uh`ELGVVg NM:i:0
-EAS38_1_35_405_941 16 chr1 3190979 255 35M * 0 0 AGTTCAGCCAGTGTCAACATGACTAGTGGTTTCCC E??>bfB^hhOIT_hhhhhhUWhhhhh^hhhhhhh NM:i:0
-EAS38_1_307_828_462 16 chr1 3190995 255 35M * 0 0 ACATGACTAGTGGTTTCCCAAGCACTTGCTTGGAA hRhhhhh^hhhhhhhhGfhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_118_418_323 16 chr1 3191023 255 35M * 0 0 CGTGGAAGCAAAGATAAAGAAAGTCTGCTTTCCAG IS@dWhh]NhhhHhbhhhhhhhhZhchhhhghhhh NM:i:2
-EAS38_1_144_10_603 0 chr1 3191023 255 35M * 0 0 CTTGGAAGCAAATATAAAGAAAGTCTGCTTTCCAG hhhhhhhhhhZhhhhhhdhWhhhhhhh^hhhDhKU NM:i:0
-EAS38_1_219_965_773 16 chr1 3191038 255 35M * 0 0 AAAGAAAGTCTGCTTTCCACGCTTCTCATCTATAG hhhIhhh[ehXQhhhahhhJhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_56_375_762 16 chr1 3191134 255 35M * 0 0 CATTATTAGAAATTCCAACCCTAGTTATGAAAGAT hh_VhKZhMhhhSXbhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_148_601_688 16 chr1 3191142 255 35M * 0 0 GAAATTCCAACCCTAGTTATGAAAGATTGAGGGGA hhhhhTdhhhhhhhhhhhhhhhhhhhhhhhhhh>h NM:i:1
-EAS38_1_236_489_757 0 chr1 3191149 255 35M * 0 0 CAACCCTAGTTATGAAAGATTGAGGGAAAGTGATA hhhhhhhhhhhhhhhhhhThhhbhhhSKhhXhTh_ NM:i:0
-EAS38_1_144_552_470 0 chr1 3191153 255 35M * 0 0 CCTAGTTATGAAAGATTGAGGGAAAGTGATAAAGA hhhhhhhhhhhhhhehhhh`h\IPThhhThGKUML NM:i:0
-EAS38_1_288_225_365 16 chr1 3191173 255 35M * 0 0 GGAAAGTGATAAAGAACAAAAGGGAGGGATATTAT hhhhhh\hh`hhhhhhMhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_33_904_669 0 chr1 3191192 255 35M * 0 0 AAGGGAGGGATATTATTCTCTCATTTTTAACAGCA hhhhhhhhhhhhhhhhhhhhhhghhhhhhhhYKJH NM:i:0
-EAS38_1_123_430_125 16 chr1 3191220 255 35M * 0 0 AACAGCATATTTGTCTTAGCTTTAAATCCAGAGTA hhDh`Ch`h[UTh[RhehhcThhhhhhhhhhhhhh NM:i:0
-EAS38_1_179_676_404 16 chr1 3191241 255 35M * 0 0 TTAAATCCAGAGTACTGTTTGGCTTCAAAGAAGAT QhhhhLZUhhhhfhhbhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_120_22_725 0 chr1 3191250 255 35M * 0 0 GAGTACTGTTTGGCTTCAAAGAAGATAGTCATCTC hhhhhhhhhhhhhhhhfhhhhahhhhdhhhZhNhX NM:i:0
-EAS38_1_223_373_449 0 chr1 3191268 255 35M * 0 0 AAGAAGATAGTCATCACTGGTTCTCTTACTGAGAA hhhhhhhhhhhhhhhDhhhhZhhhhhh^hh[NFCQ NM:i:1
-EAS38_1_112_183_986 0 chr1 3191269 255 35M * 0 0 AGAAGATAGTCATCTCTGGTTCTCTTACTGAGAAT hhhhhhhhhhhhhhhfhhhehhhfhhX\hhVhbKg NM:i:0
-EAS38_1_172_99_819 16 chr1 3191287 255 35M * 0 0 GTTCTCTTACTGAGAATAGNAAGTCTCTCCTTACT U\VhOhhhhhhhhhhhhhh;hhhhhhhhhhhhhhh NM:i:1
-EAS38_1_210_930_591 16 chr1 3191287 255 35M * 0 0 GTTCTCTTACTGAGAATAGAAAGTCTCTCCTTACT LWK^Khh^ShNhhhhhhhhhhhhXhhhhhhhhhhh NM:i:0
-EAS38_1_100_778_539 16 chr1 3191290 255 35M * 0 0 CTCTTACTGAGAATAGAAAGTCTCTCCTTACTGAG hhfhhhThhhhhhhhhhhhh^hhhhhhhhhhhhhh NM:i:0
-EAS38_1_25_830_623 16 chr1 3191298 255 35M * 0 0 GAGAATAGAAAGTCTCTCCTTACTGAGAATAGGAA YhRhhLhhhhhh`h\hhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_304_473_442 0 chr1 3191304 255 35M * 0 0 AGAAAGTCTCTCCTTACTGAGAATAGGAAGCCATC `hhhThehhhhh\hhXYhgJ`ILQLDNBIAAM=HD NM:i:0
-EAS38_1_205_508_718 16 chr1 3191307 255 35M * 0 0 AAGTCTCTCCTTACTGAGAATAGGAAGCCATCTTC hhRBOThbhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_293_376_615 16 chr1 3191307 255 35M * 0 0 AAGTCTCTCCTTACTGAGAATAGGAAGCCATCTTC hhh@hFhOhhghhh[hh`hhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_182_907_727 16 chr1 3191326 255 35M * 0 0 ATAGGAAGCNATCTTCATACCTGTCCCTCTGCATT hM^FJg`Mh;hhhhfhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_222_741_776 0 chr1 3191358 255 35M * 0 0 ATTTATTCTTGAGGTTACTGAGCCATCTGGCTACA hhhhhhhhhhhhhhChhYhTehDVghIhh][ZF?K NM:i:0
-EAS38_1_88_323_543 16 chr1 3191374 255 35M * 0 0 ACTGAGCCATCTGGCTACAGAGAAGAAAAGCAAGA X\Ghhe^JhNaXhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_66_197_743 16 chr1 3191383 255 35M * 0 0 TCTGGCTACAGAGAAGAAAAGCAAGAGTTGTTTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_173_864_740 16 chr1 3191391 255 35M * 0 0 CAGAGAAGAAAAGCAAGAGTTGTTTTTTTATTTTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_124_858_171 16 chr1 3191398 255 35M * 0 0 GAAAAGCAAGAGTTGTTTTTTTATTTTTATTTTAT chhhhU\hhhhcOchhObh]hhhhhhhhhhhhhhh NM:i:0
-EAS38_1_126_138_418 16 chr1 3191410 255 35M * 0 0 TTGTGTTTTTATTTTTATTTTATTTTTATTTTTTT U`hhBfhZZhhh`Yhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_221_397_462 0 chr1 3191429 255 35M * 0 0 TTTTTTTTATTTTTTTAAGTAGAAGCAAGATTCTC hhhhhhhhZhhhhhhhhVFhbKMSWhRG]?hhQh[ NM:i:1
-EAS38_1_216_901_971 0 chr1 3191444 255 35M * 0 0 TAAGTAGAAGCAAGATTCTCATTAAGGCTAACTAT hhhhhhhhhhhhhhhhhahZZhbhabfQ[MKFWGU NM:i:0
-EAS38_1_282_128_662 0 chr1 3191445 255 35M * 0 0 AAGTAGAAGCAAGATTCTCATTAAGGCTAACTATG hhhhhhhchhhhh]hhhhhVhhZhhhZhZ@MbMaL NM:i:0
-EAS38_1_77_686_871 0 chr1 3191446 255 35M * 0 0 AGTAGAAGCAAGATTCTCATTAAGGCTAATTATGT hhhhhhhhhhhhhhhdhhhhhhhhh^hh]@hhh`B NM:i:2
-EAS38_1_95_356_853 0 chr1 3191446 255 35M * 0 0 AGTAGAAGCAAGATTCTCATTAAGGCTAACTATGC hhhhhhhhhhhhhhhhhhhhhhPhhfh\HJGUhLN NM:i:0
-EAS38_1_315_80_525 0 chr1 3191449 255 35M * 0 0 AGATGCAAGATTCTCATTAAGGCTAACTATGCTAT hhhhhhhhhhhhhhhehhhR\Khh]]gh[hZ_hJh NM:i:1
-EAS38_1_211_797_532 0 chr1 3191471 255 35M * 0 0 CTAACTATGCTATTCTCCACTGCGCCCCATTGATC hhhhhhhhhhhhhhhhhhhhhfcIhLh[HhgUUhK NM:i:0
-EAS38_1_326_311_799 0 chr1 3191471 255 35M * 0 0 CTAACTATGCTATTCTCCACTGCGCCCCATTGATC hhhhhhhhhhhhhhhhhhhhhhhhghhhhhhhVhG NM:i:0
-EAS38_1_107_806_891 16 chr1 3191478 255 35M * 0 0 TCCTATTCTCCACTGCGCCCCATTGATCAGACAAT LBfP^MWhAhh_hh^hZhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_121_349_512 0 chr1 3191489 255 35M * 0 0 ACTGCGCCCCATTGATCAGACAATGGCTTTAAGTG hhhhhhhhhhhhhhhhhhhhhBhhhhhhhhOOJeT NM:i:0
-EAS38_1_219_430_836 16 chr1 3191498 255 35M * 0 0 CATTGATCAGACAATGGCTTTAAGTGGGGCCTAAA c_WRRdUhhN[hhhdaWhOhhhghhhhhhhhhhhh NM:i:0
-EAS38_1_98_807_431 16 chr1 3191517 255 35M * 0 0 TTAAGTGGGGCCTAAATGAACTGTTGGACATCAGG PQg^SGhO[eOKhhhh`hhhYahhXhhhhhhhhhh NM:i:0
-EAS38_1_155_241_829 16 chr1 3191535 255 35M * 0 0 AACTGTTGGACATCAGGTTCATGAAAACGGTTTTG ]QbLHKRRThhhWhhh[hdghhhhhhhhhhhhhhh NM:i:0
-EAS38_1_223_732_501 0 chr1 3191535 255 35M * 0 0 AACTGTTGGACATCAGGTTCATGAAAACGGTTTTG hhhhhhhhhYhahh\EQghh\hPMJd_hSX[XhgE NM:i:0
-EAS38_1_320_444_109 16 chr1 3191535 255 35M * 0 0 AACTGTTGGACATCAGGTTCATGAAAACGGTTTTG hbHUhhGhhhRhhhhhWZhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_103_761_542 0 chr1 3191537 255 35M * 0 0 CTGTTGGACATCAGGTTCATGAAAACGGTTTTGTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_245_218_950 0 chr1 3191539 255 35M * 0 0 GTTGGACATCAGGTTCATGAAAACGGTTTTGTGCA hhhhhhhhhchhhhhhhhhhhhhKhhhhhh_\R>f NM:i:1
-EAS38_1_54_654_789 0 chr1 3191548 255 35M * 0 0 CAGGTTCATGAAAACGGTTTTGTGAAGGTAATATA hhhhhhhhhhhhhhhhhhhhhhhhhhhhLhChhh^ NM:i:0
-EAS38_1_242_532_556 0 chr1 3191553 255 35M * 0 0 TCATGAAAACGGTTTTGTGAAGGTAATATATCAGT hhhhhh]hhhhhhhhhZhTfchhO[LhUhXTCJJP NM:i:0
-EAS38_1_37_578_493 16 chr1 3191563 255 35M * 0 0 GGTTTGGTGAAGGTAATATATCAGTAATATGGTTG THOCeDUEhhZQgchhhhhhJhhhhhhhhhhhhhh NM:i:1
-EAS38_1_151_713_632 0 chr1 3191572 255 35M * 0 0 AAGGTAATATATCAGTAATATGGTTGACATAAATA hhhhhhhhhhhhhhhhhhhhhhhhhhh`hhhSThh NM:i:0
-EAS38_1_152_680_718 0 chr1 3191572 255 35M * 0 0 AAGGTAATATATCAGTAATATGGTTGACATAAATA hhhhhhhhhhhhhhhhhhhhhhhhh^g\hhbhhh^ NM:i:0
-EAS38_1_152_24_706 0 chr1 3191573 255 35M * 0 0 AGGTAATATATCAGTAATATGGTTGACATAAATAA hhhhhhhhhhhhhhhhhhhhhhhhhOehhhWhhhW NM:i:0
-EAS38_1_330_686_422 16 chr1 3191575 255 35M * 0 0 GTAATATATCAGTAATATGGTTGACATAAATAAGC GLhhdhbhGJhh_hhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_275_44_659 0 chr1 3191579 255 35M * 0 0 TATATCAGTAATATGGTTGACATAAATAAGCTGGG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhTcg NM:i:0
-EAS38_1_324_589_894 0 chr1 3191579 255 35M * 0 0 TATATCAGTAATATGGTTGACATAAATAAGATGGG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhXhhhh NM:i:1
-EAS38_1_121_763_313 0 chr1 3191589 255 35M * 0 0 ATATGGTTGACATAAATAAGCTGGGAAATAGTTCT hhhhhhhhhhhhhhhhhhhhhhchhWFhhTChhfh NM:i:0
-EAS38_1_130_668_987 16 chr1 3191610 255 35M * 0 0 TGGGAAATAGTTCTTTTAGGAAGTAGAAGATTTTT UT>Khbhbhhh[hhhhZhhfhhhhhhhhhhhhhBh NM:i:0
-EAS38_1_80_262_758 16 chr1 3191611 255 35M * 0 0 GGGAAATAGTTCTTTTAGGAAGTAGAAGATTTTTC PYdhhhMhh\HhhVhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_272_104_967 0 chr1 3191614 255 35M * 0 0 AAATAGTTCTTTTAGAAAGTAGAAGATTTTTCTCT hhhhhhhhhhhhhhhGhhhhhhhehXhhhhhZhZh NM:i:1
-EAS38_1_142_144_587 16 chr1 3191617 255 35M * 0 0 TAGTTCTTTTAGGAAGTAGAAGATTTTTCTCTTTG bhhhHPhNhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_282_509_344 16 chr1 3191618 255 35M * 0 0 AGTTCTTTTAGGAAGTAGAAGATTTTTCTCTTTGT hh^YdVSKWhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_3_797_743 0 chr1 3191619 255 35M * 0 0 GTTCTTTTAGGAAGCAGAAGATTTTTCTCTTTTTG hhhhhhhhhhhhhhAhhhhhXhhhhhhhfhhhHhb NM:i:2
-EAS38_1_311_266_241 16 chr1 3191633 255 35M * 0 0 TAGAAGATTTTTCTCTTTGTGTCTGTGTCTTTCAT LhhhhhhXGFHH_HhhhThhhdhhhhhhhhhhhhh NM:i:0
-EAS38_1_282_320_153 16 chr1 3191635 255 35M * 0 0 GAAGATTTTTCTCTTTGTGTCTGTGTCTTTCATTT OQ\\PEA[JHNGRQJhhhhXNhhWhVhhUfhhhhh NM:i:0
-EAS38_1_74_839_687 16 chr1 3191635 255 35M * 0 0 GAAGATTTTTCTCTTTGTGTCTGTGTCTTTCATTT MhhWhS[hhGhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_119_931_54 16 chr1 3191636 255 35M * 0 0 AAGATTTTTCTCTTTGTGTCTGTGTCTTTCATTTG QJ?JRKXIZaOhYYdbhhhhbhhhfhhhhhhhhhh NM:i:0
-EAS38_1_171_559_793 16 chr1 3191638 255 35M * 0 0 GATTTTTCTCTTTGTGTCTGTGTCTTTCATTTGCC U_NhR[ZhhhRhWhhhhhh>hhhhhhhhhhhhhhh NM:i:0
-EAS38_1_9_831_797 0 chr1 3191643 255 35M * 0 0 TTCTCTTTGTGTCTGTGTCTTTCATTTGCCTTTGT hhhhhhhhhhhhhhhhhhGhhhGChhhH>Kd?hEA NM:i:2
-EAS38_1_112_463_853 0 chr1 3191663 255 35M * 0 0 TTCATTTGCCTATGAAAAGAATGTTAGTTGGCTGT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhah^h NM:i:0
-EAS38_1_200_507_523 16 chr1 3191673 255 35M * 0 0 TATGAAAAGAATGTTAGTTGGCTGTAACCATAAAA @hW^hhhhehhKgXh\hh^hhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_307_105_716 0 chr1 3191676 255 35M * 0 0 GAAAAGAATGTTAGTTGGCTGTAACCATAAAATTG hhhhhhhhhhhhhhhhhhhhhhUh[_Hh]aQdhhZ NM:i:0
-EAS38_1_81_670_875 16 chr1 3191698 255 35M * 0 0 AACCATAAAATTGGCAGTTGTATTTACAAATAATC hehhhhhhhhhhhZhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_285_30_406 0 chr1 3191712 255 35M * 0 0 CAGTTGTATTTACAAATAATCACATATATTATGCT h_hhhhh_hhh]hQQShILhhYhQhIhHhCIh@U_ NM:i:1
-EAS38_1_45_791_522 16 chr1 3191716 255 35M * 0 0 TGTATTTACAAATAATCACATATATGATGCTTACA hh`hhXhhhhhhhhhfhhhHhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_43_819_567 16 chr1 3191719 255 35M * 0 0 ATTTACAAATAATCACATATATGATGCTTACAGAA hhQhhChhhhhhhhhhhhh@hhhhhhhhhhhhhhh NM:i:0
-EAS38_1_26_772_717 0 chr1 3191761 255 35M * 0 0 CTCATTTCTAAATAATCACATATGCTAAAAGCTAG hhhhhhhhhhhhhhhhhhhhhZhhYhWfahSIhHS NM:i:0
-EAS38_1_130_865_419 0 chr1 3191766 255 35M * 0 0 TTCTAAATAATCACATATGCTAAAAGCTAGGTTTT hhhhhhhhhhhhhhhhhhhhh\`hhOhhELh_hhh NM:i:0
-EAS38_1_327_933_866 0 chr1 3191766 255 35M * 0 0 TTCTAAATAATCACATATGCTAAAAGCTAGGTTTT hhhhhhhhhhhhhhhhhhhhhhh]chYhPhLYhhh NM:i:0
-EAS38_1_126_547_811 16 chr1 3191773 255 35M * 0 0 TAATCACATATGCTAAAAGCTAGGTTTTTCTAATA hhhThhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_277_668_994 16 chr1 3191773 255 35M * 0 0 TAATCACATATGCTAAAAGCTAGGTTTTTCTAATA _hhJhhhhhhh]hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_181_734_387 16 chr1 3191780 255 35M * 0 0 ATATGCTAAAAGCTAGGTTTTTCTAATACACTTTT hNhNTARh`hhhIOhhhXeRMhLahhhhhhhhhhh NM:i:0
-EAS38_1_174_224_835 16 chr1 3191785 255 35M * 0 0 CTAAAAGCTAGGTTTTTCTAATACACTTTTACTTT hhhhhhhhhhdghhhhhhhhhhhhhhhhhhh>hhh NM:i:1
-EAS38_1_192_253_159 16 chr1 3191794 255 35M * 0 0 AGGTTTTTATAATACACTTTTATTTTCATGGAGGG hhc\PLNGAfhhhhhh[hZ[_hh[ahhhYhhhhhh NM:i:1
-EAS38_1_184_325_530 16 chr1 3191800 255 35M * 0 0 TTCTAATACACTTTTATTTTCATGGAGGGCTCTAG hGV[hhWhhhhhXh^hghhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_250_311_830 16 chr1 3191810 255 35M * 0 0 CTTTTATTTTCATGGAGGGCTCTAGAGGATTCCAC YLGJTUPJNNXgKQR_VKThhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_275_852_575 16 chr1 3191813 255 35M * 0 0 TTATTTTCATGGAGGGCTCTAGAGGATTCCACGTG JVeYM[E`hJSLV]SQVRChhhhhhhhhhhShhhh NM:i:0
-EAS38_1_77_390_526 0 chr1 3191818 255 35M * 0 0 TTCATGGAGGGCTCTAGAGGATTCCCCGTGGCATA hhhhhhhhhhhhhhhThNhhOhhOQA_^TEV=^EG NM:i:2
-EAS38_1_299_893_564 16 chr1 3191846 255 35M * 0 0 TGGAATAGAAACCACTGAAAAGAGACTCAACTCTT @aVhhKhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_294_440_933 16 chr1 3191865 255 35M * 0 0 TAGAGACTCAACTCTTTTTCCCCCCAGCAATATTA O^EV?MhDhhUh\hYKVTKhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_278_780_674 16 chr1 3191873 255 35M * 0 0 CAACTCTTTTTCCCCCCAGCAATATTATGTTGCTC hhVWchcZHXMhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_86_970_279 0 chr1 3191876 255 35M * 0 0 CTCTTTTTCCCCCCAGCAATATTATGTTGCTCTGT hhhhhhhhhhhhhhPhheHhfhhehOhhEOhUhAF NM:i:0
-EAS38_1_148_146_536 0 chr1 3191881 255 35M * 0 0 TCTCCCCCCAGCAATATTATGTTGCTCTGTGCTGC hDhhhhhhh]hhhdhhhhhhhhhEhhhh\hEhhHG NM:i:1
-EAS38_1_224_888_484 16 chr1 3191884 255 35M * 0 0 CACCCCAGCAATATTATGTTGCTCTGTGCTGCTCT P?KJEARLNW`TdVWhF^OThhMgQ\hhhhfhhhh NM:i:1
-EAS38_1_223_648_752 0 chr1 3191887 255 35M * 0 0 CCCAGCAATATTATGCTGCTCTGTGCTGCTCTATG h_hhhhhhhhhhhhh=hhhhYhhOVghhB\AhWhM NM:i:1
-EAS38_1_300_220_617 0 chr1 3191891 255 35M * 0 0 GCAATATTATGTTGCTCTGTGCTGCTCTATGCATA hhdhhhhhhhhhhhhhhhhhh\hhhhZhhhhPKhL NM:i:0
-EAS38_1_63_467_696 16 chr1 3191897 255 35M * 0 0 TTATGTTGCTCTGTGCTGCTCTATGCATATGGCAT FHh^h]Fhe?hfhhchhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_24_141_869 0 chr1 3191905 255 35M * 0 0 CTCTGTGCTGCTCTATGCATATGGCATGTTGTTGG hhhhhhh^hhUhUhhhhYhhfhh_BPcfh`RXOLS NM:i:0
-EAS38_1_184_494_683 16 chr1 3191911 255 35M * 0 0 GCTGCTCTATGCATATGGCATGTTGTTGGTACCTG =Qab\ahVhchahhh]hhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_263_460_363 16 chr1 3191919 255 35M * 0 0 ATGCATATGGCATGTTGTTGGTACCTGTACCATTC h?UIhJhWhhOhghhKhDhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_80_670_426 16 chr1 3191919 255 35M * 0 0 ATGCATATGGCATGTTGTTGGTACCTGTACCATTC cPgPhNh\hhhh[hhhhUahhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_118_725_870 0 chr1 3191927 255 35M * 0 0 GGCATGTTGTTGGTACCTGTACCATTCTCTTCCAT hhhhhhhhhhhhhhhcghhhhRSQhhUhHhhGKLh NM:i:0
-EAS38_1_88_806_693 16 chr1 3191952 255 35M * 0 0 TCTCTTCCATTGAGAATTCTAAGCCATTATGTGGA fhhhhahhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_160_191_877 16 chr1 3191955 255 35M * 0 0 CTTCCATTGAGAATTCTAAGCCATTATGTGGAGGA hhXhhh\hhhhhhehhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_300_179_943 16 chr1 3191975 255 35M * 0 0 CCATTATGTGGAGGAGCTGTTCAGCTCTCTCTAAC h^IRPXZNMBIMZL[Ehh[hdhhQhchhhhhhhhh NM:i:0
-EAS38_1_208_195_556 0 chr1 3191986 255 35M * 0 0 AGGAGCTGTTCAGCTCTCTCTAACCTATTTAGATT hhhhhhhhhhhdhhhhhhhhhPhehhMhhhTH?bh NM:i:0
-EAS38_1_16_568_852 0 chr1 3191993 255 35M * 0 0 GTTCAGCTCTCTCTAACCTATTTAGATTTTATCTT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhLhMhh NM:i:0
-EAS38_1_290_6_992 16 chr1 3192030 255 35M * 0 0 ACTTTGTGATAGAATCTCTCTATAGAATGTTCTCT F_UhhHhLhbeKhhhh^hhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_300_29_772 16 chr1 3192030 255 35M * 0 0 TCTTTGTGATAGAATCTCTCTATAGAATGTTCTCT Ahh`Vhh[hhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_109_466_314 0 chr1 3192031 255 35M * 0 0 CTTTGTGATAGAATCTCTCTATAGAATGTTCTCTC hhhhhhhhhhhfhhhhhhhhKhhGLXhRhhPhLhS NM:i:0
-EAS38_1_112_657_773 0 chr1 3192037 255 35M * 0 0 GATAGAATCTCTCTATAGAATGTTCTCTCCACCCA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh]BG NM:i:2
-EAS38_1_137_971_213 16 chr1 3192048 255 35M * 0 0 TATATAGAATGTTCTCTCAACCACCTCCTGCTAGT C@BHTcZhaFFRSB\hVT@Oehhhhhhhhhhhhhh NM:i:2
-EAS38_1_185_636_515 16 chr1 3192048 255 35M * 0 0 TCTATAGAATGATCTCTCAACCACCTCCTGCTAGT F@J\Jd]Q\ABBAcA[Mhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_1_44_970_650 0 chr1 3192058 255 35M * 0 0 GTTCTCTCCACCACCCCCTGCTAGTCATACCAAAC hhhhhhhhhhhhhhThMhhhac\h[e_WRGfUIMH NM:i:1
-EAS38_1_92_965_745 0 chr1 3192064 255 35M * 0 0 TCCACCACCTCCTGCTAGTCATACCAAACCCACCC hhhhhhhhhhhhhhhhhhhhhhhJh_hhPIV_X?G NM:i:0
-EAS38_1_261_922_44 0 chr1 3192119 255 35M * 0 0 ACTTCAGTTTTTCTTTATAAAACTTAATCAAAACC hhhh_hhfhhhhhhEh_hTTY]hh@aJhOFMTOLM NM:i:2
-EAS38_1_123_430_987 16 chr1 3192133 255 35M * 0 0 GTATAAAACTGAATCAAAACCGATGTTTATTTTTA GZhdhhh]hhdhhdhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_234_381_448 0 chr1 3192142 255 35M * 0 0 TGAATCAAAACCGATGTTTATTTTTATGATAAAAA hhBhhh]hhhhhhhhhhhhFhhhhhThB_hQ]O@Y NM:i:0
-EAS38_1_46_449_600 0 chr1 3192148 255 35M * 0 0 AAAACCGATGTTTATNTTTATGATAAAAAGGATAT hhhhhhhahhhhhhh;hhhhhhfhThNh^OGWh]h NM:i:1
-EAS38_1_239_737_373 0 chr1 3192153 255 35M * 0 0 CGATGTTTATTTTTATTATAAAAAGGATATACTTT hhhhhhhhhhhhhhdhK[hhhRW\JMPhbhNhhhh NM:i:1
-EAS38_1_24_496_314 0 chr1 3192169 255 35M * 0 0 GATAAAAAGGATATACTTTTGTATTTTGTTGTAGA hhhhhhhhhhhhhhhhhhhhDhLhhhhHM[O]EA? NM:i:2
-EAS38_1_150_229_75 16 chr1 3192202 255 35M * 0 0 GAAAAAATATTGGTTTAAGAAGGAGATAAAAAGTC hhhhhhhJhA]hhSPARhhhhhhhhhbhhhhhhhh NM:i:1
-EAS38_1_170_110_874 16 chr1 3192248 255 35M * 0 0 AATTACCTTTTACCCACTTACTGTTCTTACATGAC hhhhXhh]hQhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_142_857_213 0 chr1 3192280 255 35M * 0 0 GACCTGACTATCCTAACAAACTCTATTCTAGCACT hhhhhhhhhhhhhhh\hQh_hhhhYhhhhRB]Wbh NM:i:0
-EAS38_1_7_223_584 0 chr1 3192314 255 35M * 0 0 TGTAGATATTTTTGAGGAGTCACATACTTTTCTAT hhhhhhhhhhhhhghhK^YhhhhJhhDhhhhhhMh NM:i:1
-EAS38_1_95_195_644 16 chr1 3192330 255 35M * 0 0 GAGTCACATAATTTTCTATGCTACAGTCATGCTTC hhhbPhZhhhhOhh`hhhYhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_219_903_777 0 chr1 3192346 255 35M * 0 0 TATGCTACAGTCATGATTCAGAAAGTCTAATGTCG hhhhhhhhhhhhhhhBhhhhhhhhhghh\hhhhJ[ NM:i:1
-EAS38_1_108_439_554 16 chr1 3192349 255 35M * 0 0 GCTACAGTCATGCTTCAGAAAGTCTAATGTCGTGA aThhhhhehhdhhXhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_239_516_540 0 chr1 3192442 255 35M * 0 0 TAATTTTAGAGAATCAGAGGAGATTATATTGTGTG hhhhhhhhhhhhhhhhhhhhNhLhhThhhheOfhW NM:i:1
-EAS38_1_196_124_875 16 chr1 3192460 255 35M * 0 0 GGAGATTATATTGGGTGTCAATACTGTAAGTATTC ?N[Mhh_hWhXh[LVhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_222_834_314 16 chr1 3192460 255 35M * 0 0 GGAGATTAGATTGGGTGTCGATACTGTAAGTATTC WDXGRJOR?hCMfKhR]OAIhPXZRh^hhhhhhSh NM:i:2
-EAS38_1_230_638_588 0 chr1 3192551 255 35M * 0 0 TATTTGAAGAGTATGGAATTTATTTTGTAAATGAA hhhhhhhhhhhhhhhhhhhhhWhhhhhh\`hhhG` NM:i:0
-EAS38_1_264_255_706 0 chr1 3192603 255 35M * 0 0 AGTACTGAATGGAGCCACATCATTCACATATTTCC hhhhhhhhhhhhhhhhhhhhhghhbhhdhfhhhdP NM:i:0
-EAS38_1_105_766_448 16 chr1 3192724 255 35M * 0 0 TTAGTTTAGTCATTTAGGCAAGGAAATAGACATTG Ghhhhhhhhhhhghhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_281_8_752 0 chr1 3192785 255 35M * 0 0 GCTCAGGTTGTTTTTCCTACCATCTCTCCACATTT hhhEhhhhhhhhhhhN\hh@MOhHU>WDGHW?WTd NM:i:1
-EAS38_1_273_517_672 16 chr1 3192933 255 35M * 0 0 ATAATATGGAGATGAATCAGCTCAAGAGTTCTGAG hhhhghCfdhhhhhhhhhhhhahhhhhhhhhhhhh NM:i:0
-EAS38_1_194_915_453 16 chr1 3192959 255 35M * 0 0 AGTCCTGAGCAGAAACACCATTCCACATTCTTCTG hbIGI_hhhOhhhhhfV\hhhdhhhhhhQhhhhhh NM:i:1
-EAS38_1_270_767_516 16 chr1 3193008 255 35M * 0 0 TGTTAGAAATGGTATAAAATCCCAGTTAAACCATT ThUchhhhhfhJhhhhhhhDOhchhhhhhhhhhhh NM:i:1
-EAS38_1_311_398_506 16 chr1 3193008 255 35M * 0 0 TGTTAGAAATGGTATAAAAACCCAGTTAAACCATT OWRbhhhhhUhZhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_77_151_681 16 chr1 3193008 255 35M * 0 0 TGTTAGAAATGGTATAAAAACCCAGTTAAACCATT WCP`hhhhhRhO\hhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_210_41_603 16 chr1 3193471 255 35M * 0 0 CACATTCCTTATAACACACTGTGAGGTAGGTGAAG ^bZV`R]hh_hOhhh`hhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_124_634_862 16 chr1 3193821 255 35M * 0 0 TTTCTGGGTATGATTGCTGTTAGCCTTTCTGTTTT h^HhhhDBhhhhhhhdhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_101_162_624 0 chr1 3194186 255 35M * 0 0 TTGCACTGTGTTTAGAAATCCCTCAAAAGGTTTGC hhhhhhhhhhhhhhhhhhhhhhhhW[hPfeUhhVY NM:i:0
-EAS38_1_235_609_726 0 chr1 3194200 255 35M * 0 0 GACATCCCTCAAAAGGTTTGCATAGCCAAATGCCT QJH]I]TaV[_X^\QIERLJHEG?H>JFFD@BCC? NM:i:1
-EAS38_1_162_13_894 16 chr1 3194295 255 35M * 0 0 GGGAATTGTTCACACAATTTGTGTGTTTTTCTGTC ?HCMeVTN?Sh[hRhhhhZhbhhhhhhhhhhhhhh NM:i:2
-EAS38_1_201_123_722 0 chr1 3194814 255 35M * 0 0 AACCATTATGTAAAGTATACTTTATAAATGTTTAA hhhhhhhhhhhhhhhhhhhhhhhhh]hhhhhhh\M NM:i:0
-EAS38_1_251_938_580 16 chr1 3195076 255 35M * 0 0 TATTTATCTTTGTACAACAAAGAGACTCTTAGCAG dYGWNFSQhWVPhhGhh`hhhehhhhhhhhhhhhh NM:i:1
-EAS38_1_8_777_292 16 chr1 3195076 255 35M * 0 0 TATTTATCTTTGTACAAAAAAGAGACTCTTAGCAG JQFAH@BLJGRNEhQhhDhhhfhhhh]]hhhhhhh NM:i:2
-EAS38_1_212_466_584 0 chr1 3195258 255 35M * 0 0 GCTATCCCAAAACCATATGTGCTGCTTGTATGAAC hhhhhhhhhghhhhfhhhh]hZhhhhhbhfhOD>M NM:i:1
-EAS38_1_137_805_954 0 chr1 3195451 255 35M * 0 0 GGAAAAGTCAGAACTTTGGGGTGATCAAACGTCTA hhhhhhhhhhhhhhhhhhhhhghhhCPhPIhMJYD NM:i:1
-EAS38_1_63_741_75 0 chr1 3195451 255 35M * 0 0 GGAAAAGTCAGAACTTTTGTGTGATCAACCGTCTA hhhhhhhhhhhVhhhhhFEJFhOHhSVRG@N_D_Q NM:i:2
-EAS38_1_146_999_561 16 chr1 3197082 255 35M * 0 0 GGAATCCATTGGCTGATCTTTTAAGAAGTAGTTCT SahhhRhhhXh\hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_295_1_556 16 chr1 3197082 255 35M * 0 0 GGAATCCATTGGCTGATCTTTTAAGAAGTAGTTCT bdhhMFhhgehhhhhhbIhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_133_696_323 16 chr1 3197239 255 35M * 0 0 CCTGCAATGAACCAACTGCTCCTTTCCCATTAATT ??FCJ??@DSCECKJ]JbhLXbXh\hUhhh^hhhf NM:i:2
-EAS38_1_184_992_275 0 chr1 3197347 255 35M * 0 0 GATTAATTAACTGCAATTCATCTCCAGTAAAATTT hhhhhhhhhhhhhhhShhhhhhhhh^`WILU_hhh NM:i:0
-EAS38_1_261_311_801 16 chr1 3197969 255 35M * 0 0 ATAAAAATTGAACAAAAAAAAGAAATGGGTTTCTT hchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_199_494_378 16 chr1 3198110 255 35M * 0 0 GCCATGCCAGAATGCTAGGACAATAGTTAAATTAA ?Dhh\hKPhhhhUhZhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_186_296_431 16 chr1 3199201 255 35M * 0 0 GTTAGCACTTTGTCACATATTCCACTGCTTTTAAA S>MhSKKDFJVhGHhPh]hdWhhhhhhhhhhhhhh NM:i:0
-EAS38_1_32_939_527 0 chr1 3199927 255 35M * 0 0 TTTCCCTAGTTTAGCTGTGATGCCTTTGACAAGCT hhhhhhhhhhhhhhhhhhhhhhghhhhVFYNVGYh NM:i:0
-EAS38_1_174_562_297 0 chr1 3200023 255 35M * 0 0 AAGGGAGATAGATCCCAGAGGTAAGGATCTTCAAG hbhRL^hCXHWNdNTMIH?IJG?DDE?C>KFH@B? NM:i:2
-EAS38_1_80_292_639 0 chr1 3200090 255 35M * 0 0 GATACTCTTAACTGATATGGGAATCAAGCCACACG hhhhhhhhhhhhhhhhhhhYcEhhh^d^TOhh]K? NM:i:1
-EAS38_1_146_971_305 16 chr1 3200157 255 35M * 0 0 ACGTTCAGCTTAGATTGTTTCTGAGTTTGTGTCCT RMOUAJ[YRHYh\hZhhhW[hhhhhhhhhhhhhhh NM:i:0
-EAS38_1_103_633_813 16 chr1 3200318 255 35M * 0 0 TATAATATAATAAGGATCTAACATGTTGCTTTCTC YghhhNhUhh^hhThh]hhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_268_250_819 16 chr1 3200318 255 35M * 0 0 TATAATATAATAAGGATCTAACATGTTGCTTTCTC hhhhhVhhhhhhhgVhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_195_376_807 16 chr1 3200796 255 35M * 0 0 TCAGGGAGGGGGACTAAAGTGAGGTCACCTATTCC Ihe[Ihh]XahhhhhhhhhhhhFhhhhhhhhhhhh NM:i:1
-EAS38_1_92_137_414 0 chr1 3200902 0 35M * 0 0 TTTTTTTTTTTTTTTTTTTTTTTTCTCTATTTTCC hhhhhhhhhhhhhhhhhhhhhhdhCA@hJ@IK@AE NM:i:2
-EAS38_1_142_636_259 0 chr1 3200903 0 35M * 0 0 TTTTTTTTTTTTTTTTTTTTTTTTCCTATTTTCTA hhhhhhhhhhhhhhhhhhhhhhM?EM@>FLICF@@ NM:i:2
-EAS38_1_72_206_749 0 chr1 3200905 0 35M * 0 0 TTTTTTTTTTTTTTTTTTTTTTGATACTTTCCAAA hhhhhhhhhhhhhhhhhhhhhhBAN@UOE@YEE=@ NM:i:2
-EAS38_1_111_883_143 16 chr1 3201070 255 35M * 0 0 AAAGACAGTTGGAACTATTTTTAAAAGGCGCTTTA hhhhhQhhH`hchhfhhh\ghhhhhhhhhhhhhhh NM:i:0
-EAS38_1_255_841_137 0 chr1 3201133 255 35M * 0 0 CAGGCATCTCATCCAAGCTTTATATATAAATAGTC hhhhh\hhhhdhahDPDhhhhKhSh`LFPEePCYI NM:i:1
-EAS38_1_25_534_590 0 chr1 3201133 255 35M * 0 0 CAGGCATCTCATCCAAGCTTTATATAGAAATAGTC hhhhhUhhhhhh`hVYhYhchMgO^LWKGJHFDNE NM:i:0
-EAS38_1_11_826_739 0 chr1 3201151 255 35M * 0 0 CTAATATAGAAATAGTCGTGGCTAATGGCAAAGAT hhBhhhhhhhhhhhhhhhLhhR]`]TY^@DNPQ@D NM:i:2
-EAS38_1_200_667_750 0 chr1 3201166 255 35M * 0 0 TCGTGGCTAATGGCAAAGATATGTGATGAATGCAA hhhhhhhhhhhhhLRhIhbQ]fZYULURBNRG?EP NM:i:0
-EAS38_1_148_510_997 0 chr1 3201180 255 35M * 0 0 AAAGATATGTGATGAATGCAAGGGAGCATATATTT hhhhhhhhhhhehhhhhhZhMhhZD`FOXSV_SPZ NM:i:0
-EAS38_1_221_65_299 16 chr1 3201185 255 35M * 0 0 TATGTGATGAATGAAAGGGAGAATATATTTAGTCT BhG[Egh]hhhLhAhhhhhhhPhbhUhTWMhhSVh NM:i:2
-EAS38_1_149_164_972 0 chr1 3201186 255 35M * 0 0 ATGTGATGAATGCAAGGGAGGATATATTTAGTGTA hhhhhhhhhhhhNhhhhhdhCWh_MhhWOVhVBhU NM:i:2
-EAS38_1_269_935_919 16 chr1 3201203 255 35M * 0 0 AAACATATATTTAGTCTAGAAAGTAGTTCATTAGA FWQhh[hbhhbhhQXhhhhhhhhhhhhhhhhhhhh NM:i:2
-EAS38_1_289_238_636 0 chr1 3201226 255 35M * 0 0 TAGTTCATTAGAAAAAATTCACAGGATTCTTGTCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_125_517_695 16 chr1 3201271 255 35M * 0 0 TCAGAATTTGTTTCCACTCAGTAGCATCCAATGCA hJhHhhhWPehh\hhhhhchhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_22_489_754 16 chr1 3201281 255 35M * 0 0 TTTCCACTCGGTAGCATCCAATGCATTTGAAAGTG VNChUNhM\fDhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_122_450_662 16 chr1 3201346 255 35M * 0 0 TACACGTTTTCCTTGACTTAAGCCACGTGTTCAAT \PhJh`h[hKhhhhh`hhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_157_676_368 16 chr1 3201388 255 35M * 0 0 GAAGTAACATAAACTATTCAATTAGGCCACTTACA ghhYehhhhThhhhhh[Yhhh]hhhhhhhhhhhhh NM:i:0
-EAS38_1_4_358_468 16 chr1 3201390 255 35M * 0 0 AGTAAAAGAAACTATTCAATTAGGCCACTTACAAG hNDhhAhBhhhhWhMKdhhKbhhhhhhhhhhhhhh NM:i:2
-EAS38_1_15_825_658 16 chr1 3201447 255 35M * 0 0 AGTTCAGTCAAATCATGGAGCAAGGAATTCCATGT ]BZOJhZ`hhhhhhhhhhhhhhh]hhhhhhhhhhh NM:i:0
-EAS38_1_222_809_300 0 chr1 3201569 255 35M * 0 0 CAAAAAGTCATGGAAGTTTAAATTATCCCATGCAT hhhhh]hhhhhhS\c>hhhYhPhhhhhhhUhPhWh NM:i:1
-EAS38_1_116_429_381 16 chr1 3201665 255 35M * 0 0 TGTGTGTTTATTGAGAGTATGTGAGAAGATACCTG PhhhLhhchhh`hhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_156_372_572 16 chr1 3201665 255 35M * 0 0 TGTGTGTTTATTGAGAGTATGTGAGAAGATACCTG hhhhhhhEhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_79_182_652 16 chr1 3201849 255 35M * 0 0 TACAAAAAGCTATCATATAACAATCCATCTATCAT IAYhhhhhbhXhhhhhhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_186_626_713 16 chr1 3202147 255 35M * 0 0 CATTTATCAATCAATCTAATCTAACTTATCTATCT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_16_258_505 16 chr1 3203603 255 35M * 0 0 TTCCAGCTGGGAGGGTGAGTCTTCAGAGTTCATCA ?AIDSAPEhhhhhhhhhhhhhhfhhhhhhhhhhhh NM:i:1
-EAS38_1_197_118_218 16 chr1 3204368 255 35M * 0 0 GGTGAGGTAGGCTGATGGATTTGTAGACTGGATTC VPGgUMhAXhh@GchGdhhOXLhfhhfhhhhhhhh NM:i:1
-EAS38_1_141_404_857 0 chr1 3204755 255 35M * 0 0 TTTTTAATGGCATACACATTGCATCTGTATGCTCT hhhhhhhhhhhhhhhhhhhhhhhh_hdhhhhIhEh NM:i:0
-EAS38_1_125_490_276 16 chr1 3204799 255 35M * 0 0 AATTGTGACCCAAAGTCTCTAGTAGACACATCATT h\]@VFQ@QPAhhhhGhhI_hhhhhhhhhhhhhhh NM:i:1
-EAS38_1_171_771_691 16 chr1 3205563 255 35M * 0 0 TATGGGTATTTTGCCTGCATATATGTCTATGCACC ]hOhKfhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_284_911_331 0 chr1 3210849 255 35M * 0 0 CTCTGTATTCTCTTCTTCTATTCACATCTCTACAA hhhhhhhhhhhhhhhhhhhbhhhhhbhhhhhFhhG NM:i:0
-EAS38_1_101_808_273 0 chr1 3212214 255 35M * 0 0 AGATGGTTGGTTGTAGTTTGACCCTTGAAGTTTAT hhhhhhhhhhhhhh^XhhhhJ]hhhhHLHR\hhKh NM:i:0
-EAS38_1_161_452_506 16 chr1 3212258 255 35M * 0 0 CCGGAGTTCCCGGTGTGTTGCTACTGGCATGGTGG HJ>@_ZEEc]R[hWhfhhThhhhh]hhhhhhhhhh NM:i:2
-EAS38_1_246_740_824 0 chr1 3212368 255 35M * 0 0 TGTGTTGTTCTCTTCCACCAGAATGAACTATTGTG hhhhhhhhhhhhhh]hh[OhhhhhhOZZhMh_`Lh NM:i:0
-EAS38_1_328_863_236 0 chr1 3212368 255 35M * 0 0 TGTGTTGTTCTCTTCCACCAGAATGAACTATTGTG hhhhhhhhhhhfhhhh[hhRIhahh`ghh[hhhhW NM:i:0
-EAS38_1_71_507_507 0 chr1 3212368 255 35M * 0 0 TGTGTTGTTCTCTTCCACCAGAATGAACTATTGTT hhhhhhhhhhhhhhhhhhhg]LQhhhOhhShhHc? NM:i:1
-EAS38_1_156_360_657 0 chr1 3212393 255 35M * 0 0 AACTATTGTGAGTCTAGAGCTTCTCCAAATGCCTC hhhhhhhhhhhhhhhhhhhhhhXhVhChhhhhdbh NM:i:0
-EAS38_1_327_554_773 0 chr1 3212413 255 35M * 0 0 TTCTCCAAATGCCTCTTGTTACAAACATGCATATA hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_316_581_646 0 chr1 3213096 255 35M * 0 0 TTTTAATCTTATCTCCTCACTGCCTCCCTCTTAGG hhhhhhhhhhhhhhhhhgdhh_dRhhG^hfhYKJF NM:i:0
-EAS38_1_90_952_487 16 chr1 3214147 255 35M * 0 0 TCCCTGGATGAAGGAGGTTCAATTGGATTGAATTA DCQNQXOaeUhhUThcNhh`hhhhhhhhhhhhhhh NM:i:0
-EAS38_1_191_680_14 0 chr1 3225128 255 35M * 0 0 ATATTTTCCAACAGGTAAGAAGTATGCAAGCTCCA hhMhhhhhhchhhJJUIhEOPPDHhE[T@@IDD?A NM:i:1
-EAS38_1_138_982_940 0 chr1 3233636 0 35M * 0 0 TACCTCTCGCCATCTGTCAATCTCTGGAGTCAGTT hJhhhhh^hahYhhhhJBhhhLhJhhVaXJAB_BL NM:i:2
-EAS38_1_158_9_677 16 chr1 3242626 255 35M * 0 0 AAAATAAATAAGAGAGAGGAGCCTTACTGTGCTTG hhhhPhhh^hhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_253_923_934 16 chr1 3242672 255 35M * 0 0 AACATTGTCTTTCTGCCAGGTTTCTGTGGAGCATA CIOHFhHOhO@LhTLhhhhKhh[hhhhhchXhhhh NM:i:1
-EAS38_1_5_178_743 16 chr1 3242672 255 35M * 0 0 AACATTTTCTGTCTGCCAGGTTTCTGTGGAGCATA QEDJM@C?]OOKhKRh^fUOR^Nhchehhhhhhhh NM:i:1
-EAS38_1_198_267_632 0 chr1 3242722 255 35M * 0 0 CGACACACCCCTTCTGCATACTGGCCTGTCACTGA hhhhhhhhhhhhhhhhhhhhhhhhhQhJT?ISHLA NM:i:2
-EAS38_1_19_755_678 0 chr1 3242782 255 35M * 0 0 GAGAACAGCAACTCCTCCTATAGCTTCTAGAGACA hhhhhhhhhhVRhUZghFgEhYhLQROfI?OCIGE NM:i:0
-EAS38_1_243_907_786 0 chr1 3242782 255 35M * 0 0 GAGAACAGCAACTCCTCCTATAGCTTCTAGAGACC hhhhhVhhNhhhhUahhWhJWhZOKhO\MPTGN?> NM:i:1
-EAS38_1_278_440_897 0 chr1 3242782 255 35M * 0 0 GAGAACAGCAACTCCTCCTATAGCTTCTAGAGACA hhhhhhhhhhhhhehh_YhhhhhDhhDhNMEXANO NM:i:0
-EAS38_1_173_938_288 0 chr1 3242827 255 35M * 0 0 GCACTGGGCCTTTCTTCTGTGTCTGAGCTATTTCA hhhhhhhhhhhhhhhhhhhhhINhg?e\hVhhHhC NM:i:1
-EAS38_1_157_930_237 16 chr1 3242836 255 35M * 0 0 CTTTCTTCTGTGTCTGAGCTATTGCATTATATCTT PMUNNFZYHhFaVhUhhh^Shhhhhhhhhhhhhhh NM:i:0
-EAS38_1_266_172_602 16 chr1 3242889 255 35M * 0 0 TTCTAATCACTGATGCATTAATTAAAAGAATCATA XJLLBhchhNehhhhYhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_149_88_885 0 chr1 3243019 255 35M * 0 0 TTCTCTATATTCCTAGAGTTGTGTGGAAACTAATA hhhhhhhhhhhhhhhhhhhhhhhhhadLhObALgf NM:i:1
-EAS38_1_62_896_441 16 chr1 3243045 255 35M * 0 0 AAAATCATATGATACCATTTATGCTTGCCAGAACG hh_CZJh[hhhhhhhhhhXhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_12_294_576 16 chr1 3243367 255 35M * 0 0 AGAATAATAAATTATCCTATAAGCTGGGCTTGATG _hhhQhhahhhNNhDh[\hNhhhhWhhhhdhh>hh NM:i:1
-EAS38_1_2_533_514 16 chr1 3243367 255 35M * 0 0 AGAATAATAAATGATCCTATAAGCGGGGCTTGGTG hahhPh\ChZhhXhPhBNRZKhhh\hhhhhhhhhh NM:i:2
-EAS38_1_305_285_786 16 chr1 3243648 255 35M * 0 0 CAAAATATTGTTAGATTTGTTTGAGAGATTTGTTG hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_67_916_874 0 chr1 3243986 255 35M * 0 0 GATTATAATACCCTCGTTGAGATTTGTTTGTTATT hhhhhhhhhhhhhhhhhhh\hZhhhhhhhh^hfhh NM:i:0
-EAS38_1_123_564_954 16 chr1 3254091 255 35M * 0 0 GGAGTGACTGGCCTCCCCTCTTCTTTATAAAGCGT CDM?P<Mh@=FhhThhhhhhhdhhhhhhhhhhhhh NM:i:0
-EAS38_1_55_599_652 16 chr1 3254559 3 35M * 0 0 GTGTCAAGCTCTTGCAGAGCCTCTCAGGAGACAGC @AC=EhKFhAZMGW^Zhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_143_932_612 16 chr1 3256967 255 35M * 0 0 CCTAGAGACAAGGGCTGAAGCAGGCCAGTTATTTT JEEKSVIQNMSdN_h[dhhhhhehhhhhhhhhhhh NM:i:0
-EAS38_1_212_69_386 16 chr1 3256977 255 35M * 0 0 AGGGCTGAAGCAGGCCAGTTATTTTAGGAGAGCAG ROJUGJhhhhCUh]RJhhhhhh[hhhhhhhhhhhh NM:i:0
-EAS38_1_256_785_413 16 chr1 3256977 255 35M * 0 0 AGGGATGAAGCAGGCCAGTTATTTTAGGAGAGCAG U`MUAAebhaM[WbHHhhNhhfhh`hhhhhhhhhh NM:i:1
-EAS38_1_105_481_788 16 chr1 3268974 255 35M * 0 0 GCCCGAAAAAATCTGCTTTATATTGGCCACATACG DhGaahhhhhhhhhchhhhhhhhhhhhhhhhhhhh NM:i:1
-EAS38_1_16_282_422 16 chr1 3273908 255 35M * 0 0 CAAATGGGACACCATTGTCTACATTTATGGTAAGT AOBNCFVEVCWFM_PCdOFGhRhXLahhhhehhhh NM:i:2
-EAS38_1_283_187_798 0 chr1 3274213 255 35M * 0 0 TTAGTGAGCCTGAACCAACCAACCAATGAATATAC hhhhhhhhhhhhhhVhhhPhhhLhhXhhZOhhhhY NM:i:0
-EAS38_1_329_178_196 0 chr1 3274786 255 35M * 0 0 GGAAGGCAGATCAGTATAGGTTACCAATAAAATTG hhhhhhhdhhhhhhhchh_@ERhhhEhhCgUWhha NM:i:1
-EAS38_1_300_318_77 16 chr1 3276576 255 35M * 0 0 GAAGAAGAAATATAAGCAGTCCAAGCAGGTTTCAG hhhhMhhhhhhhZKhhghhhARhhhhhhhhhhhhh NM:i:2
-EAS38_1_118_479_935 0 chr1 3276843 255 35M * 0 0 TTTTATCCTCTAGCATGTCAGTCAGGTACAGGGAT hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh?O NM:i:0
-EAS38_1_41_971_61 0 chr1 3277038 255 35M * 0 0 TGATAAAACAAAAATGTAGACCTTTTAACAGACCC hhhhh\`Z^NhV[]hO[ODJJHW`TbIE?GDBDE> NM:i:2
-EAS38_1_183_306_813 16 chr1 3277183 255 35M * 0 0 CCCATATTATCTTGGAGGTAGGATGATAGTGGTTT ehhhhhdhVNhZhhhhh[hhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_288_251_841 16 chr1 3277184 255 35M * 0 0 CCATATTATCTTGGAGGTAGGATGATAGTGGTTTC U[h^hNhh]hehhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_40_672_870 16 chr1 3277184 255 35M * 0 0 CCATATTATCTTGGAGGTAGGATGATAGTGGTTTC Uhh]hMhhNhhgQ[h_Nhh_fhhhhhhhhhhhhhh NM:i:0
-EAS38_1_325_652_299 0 chr1 3278086 255 35M * 0 0 TTTCTGTTTTAAATTAATTACCTTTATTCCATGTC hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhPhh NM:i:0
-EAS38_1_188_971_708 16 chr1 3278146 255 35M * 0 0 TCTTCCTCTTCGTTAGTTTGAATTTATTTCGTTCT P_QOhhWhhhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_295_186_302 16 chr1 3278229 255 35M * 0 0 CTTGTTGAGTGTTCTGCATGGAATAGAGGCATTTT CDG@ENd`[KQF@J?TEOBXYXaR\`V`hRhLhPh NM:i:1
-EAS38_1_314_975_553 16 chr1 3279235 255 35M * 0 0 ATTTGATAGGGACAGAATAAAAAGTGATAATTCTG hNJaVhahQDLhhhhhhRhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_220_655_831 16 chr1 3279355 255 35M * 0 0 AGAAAATACTTGCTTATTGCTGGAACACGTGACAT hShchXMRhK]Rhahhhhhhh^QhhhShhhhhhhh NM:i:0
-EAS38_1_267_333_743 16 chr1 3280494 255 35M * 0 0 CGTGATGCATCACCAGGGTATCCATGTATAGACTA FQNFhGVHhPfehVehKhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_165_158_507 16 chr1 3280679 255 35M * 0 0 GGGAACGTTATTTGGTGTCTATTGTGATTATTTCC hhbU`ZhhhhdX`hhYhhNhhhghhhhhhhhhchh NM:i:0
-EAS38_1_218_851_888 16 chr1 3280707 255 35M * 0 0 TATTTCCTAAATGCCCCTCNGTTTTTGTATGTTCT MPDILT_PI[`OLhc]hCh;hhh\VhKhhhdhhhh NM:i:1
-EAS38_1_144_853_896 16 chr1 3282690 255 35M * 0 0 GTATCACAAAGGCTCTTTTAACTCAAGAGTTTCTG MhhhhhhhhhXhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_232_504_623 0 chr1 3290489 255 35M * 0 0 TCCCTACATCTCTCCATGTTACTGTAAATGATAGT hhhhhhhhhhhhhhhhhhhhhhhh\Oee_PK`OV@ NM:i:1
-EAS38_1_238_304_582 0 chr1 3290527 255 35M * 0 0 TCATTCTTATTTAGCACTGAAATAATAACCGCCTA hhhhhhhhhhhhhMhhhhhhK]hRehha\DCGWhK NM:i:0
-EAS38_1_125_161_809 0 chr1 3290844 255 35M * 0 0 GCTACTGGGTGGTCTGCATAGCTTAGTGATACACT hh`bhhhhSYhhTE[QH@RFT>RJEVDCFLMCCBI NM:i:0
-EAS38_1_155_358_888 16 chr1 3290932 255 35M * 0 0 GTGGAATTGTAGGGGTGAAAAAAGACATTTCTGAG ghhRhhhhfhhhhhhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_157_904_203 0 chr1 3291089 255 35M * 0 0 ACAGCCCTGGATGATTTTTGAATGGGAATAATCCC hhhhhhhhhhLhh]hhhhhM^hhNI_@hhQ^hUMW NM:i:0
-EAS38_1_180_814_759 16 chr1 3291152 255 35M * 0 0 AACACCTAGTCATTGTTGGTGGCACTGTCTGTAAG NNWAgXVhhVh_RYhhSeYJh_hhhhhhhhhhhhh NM:i:0
-EAS38_1_170_391_724 16 chr1 3291373 255 35M * 0 0 AAGTAAACCCTTTCTCCTGTAAGTTTCCTTTGGTC _hhWhgQhhhUbchhhhhhhhhhhhhhhhhhhXhh NM:i:0
-EAS38_1_315_950_278 16 chr1 3291611 255 35M * 0 0 TCCATGCCCAGTTTCAGGTGGGAAAACAACTAAGT QAchLb^ChhhhhYhhhhhhhhhhhhhhhhhhhhh NM:i:0
-EAS38_1_330_167_763 16 chr1 3299360 255 35M * 0 0 AAAAATCTTTTTTCTTCTTCTTTCTTTCTTTCTAT hhhhhhhhLh__hhhhhhhhhhhhhhhhhhhhh=h NM:i:1
-EAS38_1_7_984_851 16 chr1 3299360 255 35M * 0 0 AAAAATCTTTTTTCTTCTTNTTTCTTTCTTTCTTT NLPMNN`LEdULNhVhhhh;Phhhhhhhhhhhhhh NM:i:1
-EAS38_1_133_814_850 0 chr1 3299443 1 35M * 0 0 TTTGAGACAGGGTTTCTTTATATAGCCATGGTTGG hhhhhhhhhhhhEhhChhhhhhhhhOTUhhf?SSG NM:i:2
-EAS38_1_303_411_338 16 chr1 3299602 255 35M * 0 0 GAGATGAATACTGGGTAGAAAATAAAAAAATTTAC ThYhFHhhI_JXh_XhhhhhhhYhhhhhhhhhhhh NM:i:0
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffdiff_out1.txt
--- a/test-data/cuffdiff_out1.txt
+++ /dev/null
@@ -1,91 +0,0 @@
-test_id gene_id gene locus sample_1 sample_2 status value_1 value_2 log2(fold_change) test_stat p_value q_value significant
-TCONS_00000001 XLOC_000001 Xkr4 chr1:3204754-3204833 q1 q2 OK 0 8.3103e+06 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000002 XLOC_000002 - chr1:3111449-3111490 q1 q2 OK 0 2.1403e+08 1.79769e+308 1.79769e+308 0.158655 0.158655 no
-TCONS_00000003 XLOC_000003 - chr1:3111545-3111576 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000009 XLOC_000011 - chr1:3192441-3192494 q1 q2 OK 0 5.68095e+07 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000010 XLOC_000012 - chr1:3192550-3192629 q1 q2 OK 0 4.15515e+06 1.79769e+308 1.79769e+308 0.158655 0.158655 no
-TCONS_00000011 XLOC_000014 - chr1:3192731-3192811 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000012 XLOC_000015 - chr1:3192940-3193042 q1 q2 OK 0 6.02976e+06 1.79769e+308 1.79769e+308 0.0512352 0.150149 no
-TCONS_00000013 XLOC_000016 - chr1:3194185-3194226 q1 q2 OK 0 2.1403e+08 1.79769e+308 1.79769e+308 0.158655 0.158655 no
-TCONS_00000014 XLOC_000017 - chr1:3194302-3194329 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000015 XLOC_000019 - chr1:3195083-3195110 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000016 XLOC_000020 - chr1:3195450-3195477 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000017 XLOC_000021 - chr1:3197089-3197116 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000018 XLOC_000022 - chr1:3197246-3197273 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000019 XLOC_000023 - chr1:3197346-3197373 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000020 XLOC_000025 - chr1:3200022-3200191 q1 q2 NOTEST 959058 705514 -0.442943 0.376027 0.706897 1 no
-TCONS_00000021 XLOC_000026 - chr1:3200325-3200352 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000022 XLOC_000029 - chr1:3201077-3201481 q1 q2 NOTEST 77513.9 285108 1.87898 -1.76152 0.0781506 1 no
-TCONS_00000023 XLOC_000031 - chr1:3201672-3201699 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000024 XLOC_000034 Xkr4 chr1:3212213-3212292 q1 q2 OK 0 8.3103e+06 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000025 XLOC_000035 Xkr4 chr1:3212367-3212439 q1 q2 OK 0 2.4671e+07 1.79769e+308 1.79769e+308 0.0512352 0.150149 no
-TCONS_00000026 XLOC_000037 Xkr4 chr1:3213095-3213242 q1 q2 NOTEST 3.99739e+06 1.82908e+06 -1.12794 0.781831 0.434314 1 no
-TCONS_00000027 XLOC_000040 Xkr4 chr1:3242633-3242923 q1 q2 NOTEST 56312.4 372827 2.72698 -1.67622 0.0936947 1 no
-TCONS_00000028 XLOC_000042 Xkr4 chr1:3243018-3243079 q1 q2 OK 0 2.66226e+07 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000029 XLOC_000044 Xkr4 chr1:3243347-3243401 q1 q2 OK 0 5.0951e+07 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000030 XLOC_000046 Xkr4 chr1:3256974-3257011 q1 q2 OK 0 2.06814e+09 1.79769e+308 1.79769e+308 0.0786496 0.150149 no
-TCONS_00000031 XLOC_000048 Xkr4 chr1:3277190-3277218 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000033 XLOC_000052 Xkr4 chr1:3280686-3280741 q1 q2 OK 0 2.29576e+07 1.79769e+308 1.79769e+308 0.158655 0.158655 no
-TCONS_00000034 XLOC_000057 Xkr4 chr1:3290488-3290553 q1 q2 OK 0 9.79535e+06 1.79769e+308 1.79769e+308 0.158655 0.158655 no
-TCONS_00000037 XLOC_000060 Xkr4 chr1:3299443-3299664 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000038 XLOC_000062 Xkr4 chr1:3300051-3300078 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000039 XLOC_000065 Xkr4 chr1:3318999-3319051 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000040 XLOC_000068 Xkr4 chr1:3355887-3356119 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000041 XLOC_000071 Xkr4 chr1:3363214-3363278 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000042 XLOC_000073 Xkr4 chr1:3363753-3363849 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000043 XLOC_000075 Xkr4 chr1:3367135-3367162 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000044 XLOC_000077 Xkr4 chr1:3367333-3367382 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000045 XLOC_000080 Xkr4 chr1:3377211-3377262 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000046 XLOC_000083 Xkr4 chr1:3391325-3391352 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000047 XLOC_000084 Xkr4 chr1:3435841-3435880 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000048 XLOC_000085 Xkr4 chr1:3447761-3447788 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000049 XLOC_000086 Xkr4 chr1:3450906-3450965 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000050 XLOC_000087 Xkr4 chr1:3451051-3451109 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000051 XLOC_000004 - chr1:3174765-3174792 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000052 XLOC_000005 - chr1:3187401-3187428 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000053 XLOC_000006 - chr1:3188521-3188548 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000054 XLOC_000007 - chr1:3189810-3190789 q1 q2 NOTEST 368900 429265 0.21864 -0.483034 0.629072 1 no
-TCONS_00000055 XLOC_000008 - chr1:3190858-3191434 q1 q2 NOTEST 404373 338500 -0.25653 0.342922 0.731657 1 no
-TCONS_00000056 XLOC_000009 - chr1:3191512-3192077 q1 q2 NOTEST 402276 686974 0.772069 -1.24554 0.212932 1 no
-TCONS_00000057 XLOC_000010 - chr1:3192250-3192336 q1 q2 NOTEST 3.994e+06 2.93812e+06 -0.442943 0.217099 0.828131 1 no
-TCONS_00000058 XLOC_000013 - chr1:3192649-3192676 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000059 XLOC_000018 - chr1:3194706-3194733 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000060 XLOC_000024 - chr1:3197425-3197452 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000062 XLOC_000027 - chr1:3200430-3200457 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000063 XLOC_000028 - chr1:3201007-3201039 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000065 XLOC_000030 - chr1:3201596-3201666 q1 q2 OK 1.89853e+07 0 -1.79769e+308 -1.79769e+308 0.0786496 0.150149 no
-TCONS_00000066 XLOC_000032 - chr1:3201725-3201809 q1 q2 OK 1.31744e+07 0 -1.79769e+308 -1.79769e+308 0.0416323 0.150149 no
-TCONS_00000067 XLOC_000033 Xkr4 chr1:3211521-3211561 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000068 XLOC_000036 Xkr4 chr1:3212717-3212801 q1 q2 NOTEST 4.39147e+06 0 -1.79769e+308 -1.79769e+308 0.158655 1 no
-TCONS_00000069 XLOC_000037 Xkr4 chr1:3213095-3213242 q1 q2 NOTEST 1.36901e+06 0 0 0 1 1 no
-TCONS_00000070 XLOC_000038 Xkr4 chr1:3240606-3240633 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000071 XLOC_000039 Xkr4 chr1:3242479-3242512 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000072 XLOC_000041 Xkr4 chr1:3242924-3243005 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000073 XLOC_000043 Xkr4 chr1:3243108-3243154 q1 q2 OK 9.99919e+07 0 -1.79769e+308 -1.79769e+308 0.158655 0.158655 no
-TCONS_00000074 XLOC_000045 Xkr4 chr1:3254079-3254106 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000075 XLOC_000047 Xkr4 chr1:3277155-3277182 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000076 XLOC_000049 Xkr4 chr1:3277913-3278390 q1 q2 NOTEST 265614 41870.3 -2.66534 2.48499 0.0129556 1 no
-TCONS_00000077 XLOC_000050 Xkr4 chr1:3280117-3280144 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000078 XLOC_000051 Xkr4 chr1:3280498-3280525 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000079 XLOC_000053 Xkr4 chr1:3282504-3282531 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000080 XLOC_000054 Xkr4 chr1:3282650-3282677 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000081 XLOC_000055 Xkr4 chr1:3282760-3282832 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000082 XLOC_000056 Xkr4 chr1:3284966-3284993 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000083 XLOC_000058 Xkr4 chr1:3290798-3290859 q1 q2 OK 1.8095e+07 0 -1.79769e+308 -1.79769e+308 0.158655 0.158655 no
-TCONS_00000084 XLOC_000059 Xkr4 chr1:3290919-3291273 q1 q2 NOTEST 342218 75524 -2.17991 1.96162 0.049807 1 no
-TCONS_00000085 XLOC_000060 Xkr4 chr1:3299443-3299664 q1 q2 NOTEST 937403 137917 -2.76487 1.66807 0.0953024 1 no
-TCONS_00000086 XLOC_000061 Xkr4 chr1:3299691-3299733 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000087 XLOC_000063 Xkr4 chr1:3307748-3307775 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000088 XLOC_000064 Xkr4 chr1:3318620-3318647 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000089 XLOC_000066 Xkr4 chr1:3330527-3330554 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000090 XLOC_000067 Xkr4 chr1:3351240-3351311 q1 q2 OK 8.91489e+06 0 -1.79769e+308 -1.79769e+308 0.158655 0.158655 no
-TCONS_00000091 XLOC_000068 Xkr4 chr1:3355887-3356119 q1 q2 NOTEST 585828 0 -1.79769e+308 -1.79769e+308 0.0512352 1 no
-TCONS_00000092 XLOC_000069 Xkr4 chr1:3356180-3356225 q1 q2 OK 1.19208e+08 0 -1.79769e+308 -1.79769e+308 0.158655 0.158655 no
-TCONS_00000093 XLOC_000070 Xkr4 chr1:3363076-3363176 q1 q2 NOTEST 4.42166e+06 0 -1.79769e+308 -1.79769e+308 0.0786496 1 no
-TCONS_00000094 XLOC_000072 Xkr4 chr1:3363387-3363446 q1 q2 OK 4.28358e+07 0 -1.79769e+308 -1.79769e+308 0.0786496 0.150149 no
-TCONS_00000095 XLOC_000074 Xkr4 chr1:3364871-3364919 q1 q2 OK 7.29939e+07 0 -1.79769e+308 -1.79769e+308 0.158655 0.158655 no
-TCONS_00000096 XLOC_000076 Xkr4 chr1:3367210-3367237 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000097 XLOC_000078 Xkr4 chr1:3369580-3369607 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000098 XLOC_000079 Xkr4 chr1:3375001-3375028 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000099 XLOC_000081 Xkr4 chr1:3379888-3379915 q1 q2 NOTEST 0 0 0 0 1 1 no
-TCONS_00000100 XLOC_000082 Xkr4 chr1:3386739-3386836 q1 q2 NOTEST 0 0 0 0 1 1 no
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffdiff_out10.txt
--- a/test-data/cuffdiff_out10.txt
+++ /dev/null
@@ -1,88 +0,0 @@
-test_id gene_id gene locus sample_1 sample_2 status value_1 value_2 sqrt(JS) test_stat p_value q_value significant
-XLOC_000001 XLOC_000001 Xkr4 chr1:3204754-3204833 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000002 XLOC_000002 - chr1:3111449-3111490 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000003 XLOC_000003 - chr1:3111545-3111576 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000004 XLOC_000004 - chr1:3174765-3174792 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000005 XLOC_000005 - chr1:3187401-3187428 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000006 XLOC_000006 - chr1:3188521-3188548 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000007 XLOC_000007 - chr1:3189810-3190789 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000008 XLOC_000008 - chr1:3190858-3191434 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000009 XLOC_000009 - chr1:3191512-3192077 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000010 XLOC_000010 - chr1:3192250-3192336 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000011 XLOC_000011 - chr1:3192441-3192494 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000012 XLOC_000012 - chr1:3192550-3192629 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000013 XLOC_000013 - chr1:3192649-3192676 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000014 XLOC_000014 - chr1:3192731-3192811 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000015 XLOC_000015 - chr1:3192940-3193042 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000016 XLOC_000016 - chr1:3194185-3194226 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000017 XLOC_000017 - chr1:3194302-3194329 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000018 XLOC_000018 - chr1:3194706-3194733 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000019 XLOC_000019 - chr1:3195083-3195110 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000020 XLOC_000020 - chr1:3195450-3195477 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000021 XLOC_000021 - chr1:3197089-3197116 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000022 XLOC_000022 - chr1:3197246-3197273 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000023 XLOC_000023 - chr1:3197346-3197373 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000024 XLOC_000024 - chr1:3197425-3197452 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000025 XLOC_000025 - chr1:3200022-3200191 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000026 XLOC_000026 - chr1:3200325-3200352 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000027 XLOC_000027 - chr1:3200430-3200457 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000028 XLOC_000028 - chr1:3201007-3201039 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000029 XLOC_000029 - chr1:3201077-3201481 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000030 XLOC_000030 - chr1:3201596-3201666 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000031 XLOC_000031 - chr1:3201672-3201699 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000032 XLOC_000032 - chr1:3201725-3201809 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000033 XLOC_000033 Xkr4 chr1:3211521-3211561 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000034 XLOC_000034 Xkr4 chr1:3212213-3212292 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000035 XLOC_000035 Xkr4 chr1:3212367-3212439 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000036 XLOC_000036 Xkr4 chr1:3212717-3212801 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000037 XLOC_000037 Xkr4 chr1:3213095-3213242 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000038 XLOC_000038 Xkr4 chr1:3240606-3240633 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000039 XLOC_000039 Xkr4 chr1:3242479-3242512 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000040 XLOC_000040 Xkr4 chr1:3242633-3242923 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000041 XLOC_000041 Xkr4 chr1:3242924-3243005 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000042 XLOC_000042 Xkr4 chr1:3243018-3243079 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000043 XLOC_000043 Xkr4 chr1:3243108-3243154 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000044 XLOC_000044 Xkr4 chr1:3243347-3243401 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000045 XLOC_000045 Xkr4 chr1:3254079-3254106 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000046 XLOC_000046 Xkr4 chr1:3256974-3257011 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000047 XLOC_000047 Xkr4 chr1:3277155-3277182 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000048 XLOC_000048 Xkr4 chr1:3277190-3277218 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000049 XLOC_000049 Xkr4 chr1:3277913-3278390 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000050 XLOC_000050 Xkr4 chr1:3280117-3280144 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000051 XLOC_000051 Xkr4 chr1:3280498-3280525 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000052 XLOC_000052 Xkr4 chr1:3280686-3280741 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000053 XLOC_000053 Xkr4 chr1:3282504-3282531 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000054 XLOC_000054 Xkr4 chr1:3282650-3282677 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000055 XLOC_000055 Xkr4 chr1:3282760-3282832 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000056 XLOC_000056 Xkr4 chr1:3284966-3284993 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000057 XLOC_000057 Xkr4 chr1:3290488-3290553 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000058 XLOC_000058 Xkr4 chr1:3290798-3290859 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000059 XLOC_000059 Xkr4 chr1:3290919-3291273 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000060 XLOC_000060 Xkr4 chr1:3299443-3299664 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000061 XLOC_000061 Xkr4 chr1:3299691-3299733 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000062 XLOC_000062 Xkr4 chr1:3300051-3300078 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000063 XLOC_000063 Xkr4 chr1:3307748-3307775 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000064 XLOC_000064 Xkr4 chr1:3318620-3318647 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000065 XLOC_000065 Xkr4 chr1:3318999-3319051 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000066 XLOC_000066 Xkr4 chr1:3330527-3330554 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000067 XLOC_000067 Xkr4 chr1:3351240-3351311 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000068 XLOC_000068 Xkr4 chr1:3355887-3356119 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000069 XLOC_000069 Xkr4 chr1:3356180-3356225 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000070 XLOC_000070 Xkr4 chr1:3363076-3363176 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000071 XLOC_000071 Xkr4 chr1:3363214-3363278 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000072 XLOC_000072 Xkr4 chr1:3363387-3363446 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000073 XLOC_000073 Xkr4 chr1:3363753-3363849 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000074 XLOC_000074 Xkr4 chr1:3364871-3364919 q1 q2 NOTEST 0 0 0 0 1 1 no
-XLOC_000075 XLOC_000075 Xkr4 chr1:3367135-3367162 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000076 XLOC_000076 Xkr4 chr1:3367210-3367237 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000077 XLOC_000077 Xkr4 chr1:3367333-3367382 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000078 XLOC_000078 Xkr4 chr1:3369580-3369607 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000079 XLOC_000079 Xkr4 chr1:3375001-3375028 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000080 XLOC_000080 Xkr4 chr1:3377211-3377262 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000081 XLOC_000081 Xkr4 chr1:3379888-3379915 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000082 XLOC_000082 Xkr4 chr1:3386739-3386836 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000083 XLOC_000083 Xkr4 chr1:3391325-3391352 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000084 XLOC_000084 Xkr4 chr1:3435841-3435880 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000085 XLOC_000085 Xkr4 chr1:3447761-3447788 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000086 XLOC_000086 Xkr4 chr1:3450906-3450965 q1 q2 LOWDATA 0 0 0 0 0 1 no
-XLOC_000087 XLOC_000087 Xkr4 chr1:3451051-3451109 q1 q2 LOWDATA 0 0 0 0 0 1 no
diff -r a5764a397a989eb30e890d974c04f877ff169b0b -r 1d49fb745d2f59eb3846feb87569a49d4f5fd241 test-data/cuffdiff_out11.txt
--- a/test-data/cuffdiff_out11.txt
+++ /dev/null
@@ -1,1 +0,0 @@
-test_id gene_id gene locus sample_1 sample_2 status value_1 value_2 sqrt(JS) test_stat p_value q_value significant
This diff is so big that we needed to truncate the remainder.
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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commit/galaxy-central: Dave Bouvier: Remove sam_fa_indices.loc.sample from tool-data. Update migration xml to the correct revisions of cufflinks repositories.
by commits-noreply＠bitbucket.org 02 Oct '13
by commits-noreply＠bitbucket.org 02 Oct '13
02 Oct '13
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/313da0e75a88/
Changeset: 313da0e75a88
User: Dave Bouvier
Date: 2013-10-01 21:49:08
Summary: Remove sam_fa_indices.loc.sample from tool-data. Update migration xml to the correct revisions of cufflinks repositories.
Affected #: 3 files
diff -r 5aef59e6841170aa6e21794d78f709b17738595e -r 313da0e75a88883610cc878bb291b3f9f2d81a9b scripts/migrate_tools/0008_tools.xml
--- a/scripts/migrate_tools/0008_tools.xml
+++ b/scripts/migrate_tools/0008_tools.xml
@@ -15,16 +15,16 @@
<repository owner="devteam" changeset_revision="4a32700dcaa2" name="ctd_batch" description="Galaxy wrappers for the tool CTD: analysis of chemicals, diseases, or genes"><tool id="ctdBatch_1" version="1.0.0" file="ctd.xml" /></repository>
- <repository owner="devteam" changeset_revision="9d35cf35634e" name="cuffcompare" description="Galaxy wrappers for the Cuffcompare tool.">
+ <repository owner="devteam" changeset_revision="9a3f7a890da6" name="cuffcompare" description="Galaxy wrappers for the Cuffcompare tool."><tool id="cuffcompare" version="0.0.5" file="cuffcompare_wrapper.xml" /></repository><repository owner="devteam" changeset_revision="0dabb2ed6eb1" name="cuffdiff" description="Galaxy wrappers for the Cuffdiff tool."><tool id="cuffdiff" version="0.0.6" file="cuffdiff_wrapper.xml" /></repository>
- <repository owner="devteam" changeset_revision="b50aacc8ae49" name="cufflinks" description="Galaxy wrappers for the Cufflinks tool.">
+ <repository owner="devteam" changeset_revision="b01956f26c36" name="cufflinks" description="Galaxy wrappers for the Cufflinks tool."><tool id="cufflinks" version="0.0.6" file="cufflinks_wrapper.xml" /></repository>
- <repository owner="devteam" changeset_revision="dbbd37e013aa" name="cuffmerge" description="Galaxy wrappers for the Cuffmerge tool.">
+ <repository owner="devteam" changeset_revision="fdc55fd74f78" name="cuffmerge" description="Galaxy wrappers for the Cuffmerge tool."><tool id="cuffmerge" version="0.0.5" file="cuffmerge_wrapper.xml" /></repository><repository owner="devteam" changeset_revision="f16000dc644b" name="delete_overlapping_indels" description="Galaxy wrappers for the tool Delete Overlapping Indels: from a chromosome indels file">
diff -r 5aef59e6841170aa6e21794d78f709b17738595e -r 313da0e75a88883610cc878bb291b3f9f2d81a9b tool-data/sam_fa_indices.loc.sample
--- a/tool-data/sam_fa_indices.loc.sample
+++ /dev/null
@@ -1,28 +0,0 @@
-#This is a sample file distributed with Galaxy that enables tools
-#to use a directory of Samtools indexed sequences data files. You will need
-#to create these data files and then create a sam_fa_indices.loc file
-#similar to this one (store it in this directory) that points to
-#the directories in which those files are stored. The sam_fa_indices.loc
-#file has this format (white space characters are TAB characters):
-#
-#index <seq><location>
-#
-#So, for example, if you had hg18 indexed stored in
-#/depot/data2/galaxy/sam/,
-#then the sam_fa_indices.loc entry would look like this:
-#
-#index hg18 /depot/data2/galaxy/sam/hg18.fa
-#
-#and your /depot/data2/galaxy/sam/ directory
-#would contain hg18.fa and hg18.fa.fai files:
-#
-#-rw-r--r-- 1 james universe 830134 2005-09-13 10:12 hg18.fa
-#-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg18.fa.fai
-#
-#Your sam_fa_indices.loc file should include an entry per line for
-#each index set you have stored. The file in the path does actually
-#exist, but it should never be directly used. Instead, the name serves
-#as a prefix for the index file. For example:
-#
-#index hg18 /depot/data2/galaxy/sam/hg18.fa
-#index hg19 /depot/data2/galaxy/sam/hg19.fa
diff -r 5aef59e6841170aa6e21794d78f709b17738595e -r 313da0e75a88883610cc878bb291b3f9f2d81a9b tool_data_table_conf.xml.sample
--- a/tool_data_table_conf.xml.sample
+++ b/tool_data_table_conf.xml.sample
@@ -55,11 +55,6 @@
<columns>value, name, path</columns><file path="tool-data/perm_color_index.loc" /></table>
- <!-- Location of SAMTools indexes and other files -->
- <table name="sam_fa_indexes" comment_char="#">
- <columns>line_type, value, path</columns>
- <file path="tool-data/sam_fa_indices.loc" />
- </table><!-- Location of Picard dict file and other files --><table name="picard_indexes" comment_char="#"><columns>value, dbkey, name, path</columns>
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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