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[hg] galaxy 3134: Improved loading state for AJAXed grids: when ...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/6e742ffb16a5 changeset: 3134:6e742ffb16a5 user: jeremy goecks <jeremy.goecks at emory.edu> date: Tue Dec 01 11:07:20 2009 -0500 description: Improved loading state for AJAXed grids: when grid is loading, gray out table and prevent further user actions. diffstat: templates/grid_base.mako | 16 +++++++++++++++- 1 files changed, 15 insertions(+), 1 deletions(-) diffs (47 lines): diff -r e75b55cc9e08 -r 6e742ffb16a5 templates/grid_base.mako --- a/templates/grid_base.mako Tue Dec 01 09:53:36 2009 -0500 +++ b/templates/grid_base.mako Tue Dec 01 11:07:20 2009 -0500 @@ -601,6 +601,7 @@ // If there's an operation in the args, do POST; otherwise, do GET. var operation = url_args['operation']; var method = (operation != null && operation != undefined ? "POST" : "GET" ); + $('.loading-elt-overlay').show(); // Show overlay to indicate loading and prevent user actions. $.ajax({ type: method, url: "${h.url_for()}", @@ -660,6 +661,9 @@ } } + // Hide loading overlay. + $('.loading-elt-overlay').hide(); + // Show message if there is one. var message = $.trim( parsed_response_text[2] ); if (message != "") @@ -711,6 +715,15 @@ .gray-background { background-color: #DDDDDD; } + .loading-elt-overlay { + background-color : white; + opacity : 0.5; + width : 100%; + height : 85%; + z-index : 14000; + position : absolute; + display: none; + } </style> </%def> @@ -750,7 +763,8 @@ ## Render grid. <%def name="render_grid_table()"> <form action="${url()}" method="post" onsubmit="return false;"> - <table class="grid"> + <div class='loading-elt-overlay'></div> + <table id='grid-table' class="grid"> <thead id="grid-table-header"> <tr> <th></th>

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[hg] galaxy 3136: Added some error checking to pileup_parser too...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/fe853d8e062d changeset: 3136:fe853d8e062d user: Kelly Vincent <kpvincent(a)bx.psu.edu> date: Tue Dec 01 16:18:25 2009 -0500 description: Added some error checking to pileup_parser tool so that it exits with a meaningful message if the user tries to do some 6-column work on a 10-column file, or vice versa. diffstat: tools/samtools/pileup_interval.py | 16 ++++++++++++++-- 1 files changed, 14 insertions(+), 2 deletions(-) diffs (40 lines): diff -r eb317734e391 -r fe853d8e062d tools/samtools/pileup_interval.py --- a/tools/samtools/pileup_interval.py Tue Dec 01 11:49:07 2009 -0500 +++ b/tools/samtools/pileup_interval.py Tue Dec 01 16:18:25 2009 -0500 @@ -1,7 +1,7 @@ #! /usr/bin/python """ -Creates a pileup file from a bam file and a reference. +Condenses pileup format into ranges of bases. usage: %prog [options] -i, --input=i: Input pileup file @@ -18,6 +18,7 @@ from galaxy import eggs import pkg_resources; pkg_resources.require( "bx-python" ) from bx.cookbook import doc_optparse +import sys def stop_err( msg ): sys.stderr.write( msg ) @@ -56,7 +57,18 @@ bases = [] while inLine.strip() != '': lineParts = inLine.split('\t') - seq, loc, base, cov = lineParts[seqIndex], int(lineParts[locIndex]), lineParts[baseIndex], int(lineParts[covIndex]) + try: + seq, loc, base, cov = lineParts[seqIndex], int(lineParts[locIndex]), lineParts[baseIndex], int(lineParts[covIndex]) + except IndexError, ei: + if options.format == 'ten': + stop_err( 'It appears that you have selected 10 columns while your file has 6. Make sure that the number of columns you specify matches the number in your file.\n' + str( ei ) ) + else: + stop_err( 'There appears to be something wrong with your column index values.\n' + str( ei ) ) + except ValueError, ev: + if options.format == 'six': + stop_err( 'It appears that you have selected 6 columns while your file has 10. Make sure that the number of columns you specify matches the number in your file.\n' + str( ev ) ) + else: + stop_err( 'There appears to be something wrong with your column index values.\n' + str( ev ) ) # strout += str(startLoc) + '\n' # strout += str(bases) + '\n' # strout += '%s\t%s\t%s\t%s\n' % (seq, loc, base, cov)

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[hg] galaxy 3133: Merge
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/e75b55cc9e08 changeset: 3133:e75b55cc9e08 user: Enis Afgan <afgane(a)gmail.com> date: Tue Dec 01 09:53:36 2009 -0500 description: Merge diffstat: lib/galaxy/config.py | 1 + lib/galaxy/model/__init__.py | 10 +++++ lib/galaxy/model/mapping.py | 13 ++++++ lib/galaxy/model/migrate/versions/0029_user_actions.py | 47 +++++++++++++++++++++++ lib/galaxy/web/controllers/dataset.py | 2 +- lib/galaxy/web/controllers/history.py | 2 +- lib/galaxy/web/controllers/tag.py | 24 ++++++++--- lib/galaxy/web/framework/__init__.py | 17 ++++++++ lib/galaxy/web/framework/helpers/grids.py | 13 +++++- templates/dataset/edit_attributes.mako | 2 +- templates/history/view.mako | 2 +- templates/root/history.mako | 2 +- templates/tagging_common.mako | 8 ++-- universe_wsgi.ini.sample | 3 + 14 files changed, 128 insertions(+), 18 deletions(-) diffs (335 lines): diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/config.py --- a/lib/galaxy/config.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/config.py Tue Dec 01 09:53:36 2009 -0500 @@ -79,6 +79,7 @@ self.use_heartbeat = string_as_bool( kwargs.get( 'use_heartbeat', 'False' ) ) self.use_memdump = string_as_bool( kwargs.get( 'use_memdump', 'False' ) ) self.log_memory_usage = string_as_bool( kwargs.get( 'log_memory_usage', 'False' ) ) + self.log_actions = string_as_bool( kwargs.get( 'log_actions', 'False' ) ) self.log_events = string_as_bool( kwargs.get( 'log_events', 'False' ) ) self.ucsc_display_sites = kwargs.get( 'ucsc_display_sites', "main,test,archaea,ucla" ).lower().split(",") self.gbrowse_display_sites = kwargs.get( 'gbrowse_display_sites', "main,test,tair" ).lower().split(",") diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/model/__init__.py --- a/lib/galaxy/model/__init__.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/model/__init__.py Tue Dec 01 09:53:36 2009 -0500 @@ -1441,6 +1441,16 @@ def __init__( self, name=None, value=None ): self.name = name self.value = value + +class UserAction( object ): + def __init__( self, id=None, create_time=None, user_id=None, session_id=None, action=None, params=None, context=None): + self.id = id + self.create_time = create_time + self.user_id = user_id + self.session_id = session_id + self.action = action + self.params = params + self.context = context ## ---- Utility methods ------------------------------------------------------- diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/model/mapping.py --- a/lib/galaxy/model/mapping.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/model/mapping.py Tue Dec 01 09:53:36 2009 -0500 @@ -743,6 +743,15 @@ Column( "name", Unicode( 255 ), index=True), Column( "value", Unicode( 1024 ) ) ) +UserAction.table = Table( "user_action", metadata, + Column( "id", Integer, primary_key=True ), + Column( "create_time", DateTime, default=now ), + Column( "user_id", Integer, ForeignKey( "galaxy_user.id" ), index=True ), + Column( "session_id", Integer, ForeignKey( "galaxy_session.id" ), index=True ), + Column( "action", Unicode( 255 ) ), + Column( "context", Unicode( 512 ) ), + Column( "params", Unicode( 1024 ) ) ) + # With the tables defined we can define the mappers and setup the # relationships between the model objects. @@ -1237,6 +1246,10 @@ assign_mapper( context, UserPreference, UserPreference.table, properties = {} ) + +assign_mapper( context, UserAction, UserAction.table, + properties = dict( user=relation( User.mapper ) ) + ) def db_next_hid( self ): """ diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/model/migrate/versions/0029_user_actions.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/galaxy/model/migrate/versions/0029_user_actions.py Tue Dec 01 09:53:36 2009 -0500 @@ -0,0 +1,47 @@ +""" +This migration script adds a user actions table to Galaxy. +""" + +from sqlalchemy import * +from migrate import * + +import datetime +now = datetime.datetime.utcnow + +import logging +log = logging.getLogger( __name__ ) + +metadata = MetaData( migrate_engine ) + +def display_migration_details(): + print "" + print "This migration script adds a user actions table to Galaxy." + print "" + + +# New table to store user actions. +UserAction_table = Table( "user_action", metadata, + Column( "id", Integer, primary_key=True ), + Column( "create_time", DateTime, default=now ), + Column( "user_id", Integer, ForeignKey( "galaxy_user.id" ), index=True ), + Column( "session_id", Integer, ForeignKey( "galaxy_session.id" ), index=True ), + Column( "action", Unicode( 255 ) ), + Column( "context", Unicode( 512 ) ), + Column( "params", Unicode( 1024 ) ) ) + +def upgrade(): + display_migration_details() + metadata.reflect() + try: + UserAction_table.create() + except Exception, e: + print str(e) + log.debug( "Creating user_action table failed: %s" % str( e ) ) + +def downgrade(): + metadata.reflect() + try: + UserAction_table.drop() + except Exception, e: + print str(e) + log.debug( "Dropping user_action table failed: %s" % str( e ) ) \ No newline at end of file diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/web/controllers/dataset.py --- a/lib/galaxy/web/controllers/dataset.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/web/controllers/dataset.py Tue Dec 01 09:53:36 2009 -0500 @@ -87,7 +87,7 @@ link=( lambda item: iff( item.history.deleted, None, dict( operation="switch", id=item.id ) ) ), filterable="advanced" ), HistoryColumn( "History", key="history", link=( lambda item: iff( item.history.deleted, None, dict( operation="switch_history", id=item.id ) ) ) ), - grids.TagsColumn( "Tags", "tags", model.HistoryDatasetAssociation, model.HistoryDatasetAssociationTagAssociation, filterable="advanced" ), + grids.TagsColumn( "Tags", "tags", model.HistoryDatasetAssociation, model.HistoryDatasetAssociationTagAssociation, filterable="advanced", grid_name="HistoryDatasetAssocationListGrid" ), StatusColumn( "Status", key="deleted", attach_popup=False ), grids.GridColumn( "Created", key="create_time", format=time_ago ), grids.GridColumn( "Last Updated", key="update_time", format=time_ago ), diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/web/controllers/history.py --- a/lib/galaxy/web/controllers/history.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/web/controllers/history.py Tue Dec 01 09:53:36 2009 -0500 @@ -94,7 +94,7 @@ link=( lambda history: iff( history.deleted, None, dict( operation="Switch", id=history.id ) ) ), attach_popup=True, filterable="advanced" ), DatasetsByStateColumn( "Datasets (by state)", ncells=4 ), - grids.TagsColumn( "Tags", "tags", model.History, model.HistoryTagAssociation, filterable="advanced"), + grids.TagsColumn( "Tags", "tags", model.History, model.HistoryTagAssociation, filterable="advanced", grid_name="HistoryListGrid" ), StatusColumn( "Status", attach_popup=False ), grids.GridColumn( "Created", key="create_time", format=time_ago ), grids.GridColumn( "Last Updated", key="update_time", format=time_ago ), diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/web/controllers/tag.py --- a/lib/galaxy/web/controllers/tag.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/web/controllers/tag.py Tue Dec 01 09:53:36 2009 -0500 @@ -28,28 +28,38 @@ @web.expose @web.require_login( "Add tag to an item." ) - def add_tag_async( self, trans, id=None, item_class=None, new_tag=None ): + def add_tag_async( self, trans, id=None, item_class=None, new_tag=None, context=None ): """ Add tag to an item. """ - item = self._get_item(trans, item_class, trans.security.decode_id(id)) - self._do_security_check(trans, item) + # Check that user owns item. + item = self._get_item(trans, item_class, trans.security.decode_id( id ) ) + self._do_security_check( trans, item ) + # Apply tag. self.tag_handler.apply_item_tags( trans.sa_session, item, new_tag.encode('utf-8') ) trans.sa_session.flush() + # Log. + params = dict( item_id=item.id, item_class=item_class, tag=new_tag) + trans.log_action( unicode( "tag"), context, params ) + @web.expose @web.require_login( "Remove tag from an item." ) - def remove_tag_async( self, trans, id=None, item_class=None, tag_name=None ): + def remove_tag_async( self, trans, id=None, item_class=None, tag_name=None, context=None ): """ Remove tag from an item. """ + + # Check that user owns item. item = self._get_item(trans, item_class, trans.security.decode_id(id)) - self._do_security_check(trans, item) + # Remove tag. self.tag_handler.remove_item_tag( trans, item, tag_name.encode('utf-8') ) - #print tag_name - #print unicode(tag_name) trans.sa_session.flush() + # Log. + params = dict( item_id=item.id, item_class=item_class, tag=tag_name) + trans.log_action( unicode( "untag"), context, params ) + # Retag an item. All previous tags are deleted and new tags are applied. @web.expose @web.require_login( "Apply a new set of tags to an item; previous tags are deleted." ) diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/web/framework/__init__.py --- a/lib/galaxy/web/framework/__init__.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/web/framework/__init__.py Tue Dec 01 09:53:36 2009 -0500 @@ -10,6 +10,7 @@ import base import pickle from galaxy import util +from galaxy.util.json import to_json_string pkg_resources.require( "simplejson" ) import simplejson @@ -170,6 +171,22 @@ to allow migration toward a more SQLAlchemy 0.4 style of use. """ return self.app.model.context.current + def log_action( self, action, context, params): + """ + Application-level logging of user actions. + """ + if self.app.config.log_actions: + action = self.app.model.UserAction(action=action, context=context, params=unicode( to_json_string( params ) ) ) + try: + action.user = self.user + except: + action.user = None + try: + action.session_id = self.galaxy_session.id + except: + action.session_id = None + self.sa_session.add( action ) + self.sa_session.flush() def log_event( self, message, tool_id=None, **kwargs ): """ Application level logging. Still needs fleshing out (log levels and such) diff -r efed28fa6a5e -r e75b55cc9e08 lib/galaxy/web/framework/helpers/grids.py --- a/lib/galaxy/web/framework/helpers/grids.py Mon Nov 30 16:47:18 2009 -0500 +++ b/lib/galaxy/web/framework/helpers/grids.py Tue Dec 01 09:53:36 2009 -0500 @@ -200,6 +200,13 @@ trans.get_user().preferences[pref_name] = unicode( to_json_string( sort_key ) ) trans.sa_session.flush() + # Log grid view. + context = unicode( self.__class__.__name__ ) + params = cur_filter_dict.copy() + params['sort'] = sort_key + params['async'] = ( 'async' in kwargs ) + trans.log_action( unicode( "grid.view"), context, params ) + # Render grid. def url( *args, **kwargs ): # Only include sort/filter arguments if not linking to another @@ -340,17 +347,19 @@ # Generic column that supports tagging. class TagsColumn( TextColumn ): - def __init__( self, col_name, key, model_class, model_tag_association_class, filterable ): + def __init__( self, col_name, key, model_class, model_tag_association_class, filterable, grid_name=None ): GridColumn.__init__(self, col_name, key=key, model_class=model_class, filterable=filterable) self.model_tag_association_class = model_tag_association_class # Tags cannot be sorted. self.sortable = False + # Column-specific attributes. self.tag_elt_id_gen = 0 + self.grid_name = grid_name def get_value( self, trans, grid, item ): self.tag_elt_id_gen += 1 elt_id="tagging-elt" + str( self.tag_elt_id_gen ) div_elt = "<div id=%s></div>" % elt_id - return div_elt + trans.fill_template( "/tagging_common.mako", trans=trans, tagged_item=item, + return div_elt + trans.fill_template( "/tagging_common.mako", trans=trans, tagged_item=item, elt_context=self.grid_name, elt_id = elt_id, in_form="true", input_size="20", tag_click_fn="add_tag_to_grid_filter" ) def filter( self, db_session, query, column_filter ): """ Modify query to filter model_class by tag. Multiple filters are ANDed. """ diff -r efed28fa6a5e -r e75b55cc9e08 templates/dataset/edit_attributes.mako --- a/templates/dataset/edit_attributes.mako Mon Nov 30 16:47:18 2009 -0500 +++ b/templates/dataset/edit_attributes.mako Tue Dec 01 09:53:36 2009 -0500 @@ -59,7 +59,7 @@ </div> <div style="clear: both"></div> </div> - ${render_tagging_element(data, "dataset-tag-area", use_toggle_link="false", in_form="true", input_size="30")} + ${render_tagging_element(data, "dataset-tag-area", "edit_attributes.mako", use_toggle_link="false", in_form="true", input_size="30")} %endif %for name, spec in data.metadata.spec.items(): %if spec.visible: diff -r efed28fa6a5e -r e75b55cc9e08 templates/history/view.mako --- a/templates/history/view.mako Mon Nov 30 16:47:18 2009 -0500 +++ b/templates/history/view.mako Tue Dec 01 09:53:36 2009 -0500 @@ -327,7 +327,7 @@ %if trans.get_user() is not None: <div id='history-tag-area' class="tag-element"></div> - ${render_tagging_element(history, "history-tag-area", use_toggle_link='false', get_toggle_link_text_fn='get_toggle_link_text', editable=user_owns_history)} + ${render_tagging_element(history, "history-tag-area", "history/view.mako", use_toggle_link='false', get_toggle_link_text_fn='get_toggle_link_text', editable=user_owns_history)} %endif %if not datasets: diff -r efed28fa6a5e -r e75b55cc9e08 templates/root/history.mako --- a/templates/root/history.mako Mon Nov 30 16:47:18 2009 -0500 +++ b/templates/root/history.mako Tue Dec 01 09:53:36 2009 -0500 @@ -325,7 +325,7 @@ %if trans.get_user() is not None: <div id='history-tag-area' class="tag-element"></div> - ${render_tagging_element(history, "history-tag-area", get_toggle_link_text_fn='get_toggle_link_text')} + ${render_tagging_element( tagged_item=history, elt_id="history-tag-area", elt_context="history.mako", get_toggle_link_text_fn='get_toggle_link_text' )} %endif %if not datasets: diff -r efed28fa6a5e -r e75b55cc9e08 templates/tagging_common.mako --- a/templates/tagging_common.mako Mon Nov 30 16:47:18 2009 -0500 +++ b/templates/tagging_common.mako Tue Dec 01 09:53:36 2009 -0500 @@ -1,10 +1,10 @@ ## Render a tagging element if there is a tagged_item. %if tagged_item is not None and elt_id is not None: - ${render_tagging_element(tagged_item, elt_id=elt_id, in_form=in_form, input_size=input_size, tag_click_fn=tag_click_fn)} + ${render_tagging_element(tagged_item=tagged_item, elt_id=elt_id, elt_context=elt_context, in_form=in_form, input_size=input_size, tag_click_fn=tag_click_fn)} %endif ## Render the tags 'tags' as an autocomplete element. -<%def name="render_tagging_element(tagged_item, elt_id, use_toggle_link='true', in_form='false', input_size='15', tag_click_fn='default_tag_click_fn', get_toggle_link_text_fn='default_get_toggle_link_text_fn', editable='true')"> +<%def name="render_tagging_element(tagged_item, elt_id, elt_context, use_toggle_link='true', in_form='false', input_size='15', tag_click_fn='default_tag_click_fn', get_toggle_link_text_fn='default_get_toggle_link_text_fn', editable='true')"> <script type="text/javascript"> // // Set up autocomplete tagger. @@ -75,8 +75,8 @@ tag_click_fn: ${tag_click_fn}, <% tagged_item_id = trans.security.encode_id(tagged_item.id) %> ajax_autocomplete_tag_url: "${h.url_for( controller='tag', action='tag_autocomplete_data', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", - ajax_add_tag_url: "${h.url_for( controller='tag', action='add_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", - ajax_delete_tag_url: "${h.url_for( controller='tag', action='remove_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", + ajax_add_tag_url: "${h.url_for( controller='tag', action='add_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__, context=elt_context )}", + ajax_delete_tag_url: "${h.url_for( controller='tag', action='remove_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__, context=elt_context )}", delete_tag_img: "${h.url_for('/static/images/delete_tag_icon_gray.png')}", delete_tag_img_rollover: "${h.url_for('/static/images/delete_tag_icon_white.png')}", add_tag_img: "${h.url_for('/static/images/add_icon.png')}", diff -r efed28fa6a5e -r e75b55cc9e08 universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample Mon Nov 30 16:47:18 2009 -0500 +++ b/universe_wsgi.ini.sample Tue Dec 01 09:53:36 2009 -0500 @@ -144,6 +144,9 @@ # Log events log_events = True +# Log user actions +log_actions = True + # Configuration for debugging middleware debug = True use_lint = False

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[hg] galaxy 3130: Framework for recording user actions for repor...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/f98643c26eb7 changeset: 3130:f98643c26eb7 user: jeremy goecks <jeremy.goecks(a)emory.edu> date: Mon Nov 30 17:53:25 2009 -0500 description: Framework for recording user actions for reports; framework is modelled after event recording. Currently two types of actions are recorded: (a) tagging/untagging and (b) filtering/searching in grids. diffstat: lib/galaxy/config.py | 1 + lib/galaxy/model/__init__.py | 10 +++++ lib/galaxy/model/mapping.py | 13 ++++++ lib/galaxy/model/migrate/versions/0029_user_actions.py | 47 +++++++++++++++++++++++ lib/galaxy/web/controllers/dataset.py | 2 +- lib/galaxy/web/controllers/history.py | 2 +- lib/galaxy/web/controllers/tag.py | 24 ++++++++--- lib/galaxy/web/framework/__init__.py | 17 ++++++++ lib/galaxy/web/framework/helpers/grids.py | 13 +++++- templates/dataset/edit_attributes.mako | 2 +- templates/history/view.mako | 2 +- templates/root/history.mako | 2 +- templates/tagging_common.mako | 8 ++-- universe_wsgi.ini.sample | 3 + 14 files changed, 128 insertions(+), 18 deletions(-) diffs (335 lines): diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/config.py --- a/lib/galaxy/config.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/config.py Mon Nov 30 17:53:25 2009 -0500 @@ -79,6 +79,7 @@ self.use_heartbeat = string_as_bool( kwargs.get( 'use_heartbeat', 'False' ) ) self.use_memdump = string_as_bool( kwargs.get( 'use_memdump', 'False' ) ) self.log_memory_usage = string_as_bool( kwargs.get( 'log_memory_usage', 'False' ) ) + self.log_actions = string_as_bool( kwargs.get( 'log_actions', 'False' ) ) self.log_events = string_as_bool( kwargs.get( 'log_events', 'False' ) ) self.ucsc_display_sites = kwargs.get( 'ucsc_display_sites', "main,test,archaea,ucla" ).lower().split(",") self.gbrowse_display_sites = kwargs.get( 'gbrowse_display_sites', "main,test,tair" ).lower().split(",") diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/model/__init__.py --- a/lib/galaxy/model/__init__.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/model/__init__.py Mon Nov 30 17:53:25 2009 -0500 @@ -1441,6 +1441,16 @@ def __init__( self, name=None, value=None ): self.name = name self.value = value + +class UserAction( object ): + def __init__( self, id=None, create_time=None, user_id=None, session_id=None, action=None, params=None, context=None): + self.id = id + self.create_time = create_time + self.user_id = user_id + self.session_id = session_id + self.action = action + self.params = params + self.context = context ## ---- Utility methods ------------------------------------------------------- diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/model/mapping.py --- a/lib/galaxy/model/mapping.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/model/mapping.py Mon Nov 30 17:53:25 2009 -0500 @@ -743,6 +743,15 @@ Column( "name", Unicode( 255 ), index=True), Column( "value", Unicode( 1024 ) ) ) +UserAction.table = Table( "user_action", metadata, + Column( "id", Integer, primary_key=True ), + Column( "create_time", DateTime, default=now ), + Column( "user_id", Integer, ForeignKey( "galaxy_user.id" ), index=True ), + Column( "session_id", Integer, ForeignKey( "galaxy_session.id" ), index=True ), + Column( "action", Unicode( 255 ) ), + Column( "context", Unicode( 512 ) ), + Column( "params", Unicode( 1024 ) ) ) + # With the tables defined we can define the mappers and setup the # relationships between the model objects. @@ -1237,6 +1246,10 @@ assign_mapper( context, UserPreference, UserPreference.table, properties = {} ) + +assign_mapper( context, UserAction, UserAction.table, + properties = dict( user=relation( User.mapper ) ) + ) def db_next_hid( self ): """ diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/model/migrate/versions/0029_user_actions.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/galaxy/model/migrate/versions/0029_user_actions.py Mon Nov 30 17:53:25 2009 -0500 @@ -0,0 +1,47 @@ +""" +This migration script adds a user actions table to Galaxy. +""" + +from sqlalchemy import * +from migrate import * + +import datetime +now = datetime.datetime.utcnow + +import logging +log = logging.getLogger( __name__ ) + +metadata = MetaData( migrate_engine ) + +def display_migration_details(): + print "" + print "This migration script adds a user actions table to Galaxy." + print "" + + +# New table to store user actions. +UserAction_table = Table( "user_action", metadata, + Column( "id", Integer, primary_key=True ), + Column( "create_time", DateTime, default=now ), + Column( "user_id", Integer, ForeignKey( "galaxy_user.id" ), index=True ), + Column( "session_id", Integer, ForeignKey( "galaxy_session.id" ), index=True ), + Column( "action", Unicode( 255 ) ), + Column( "context", Unicode( 512 ) ), + Column( "params", Unicode( 1024 ) ) ) + +def upgrade(): + display_migration_details() + metadata.reflect() + try: + UserAction_table.create() + except Exception, e: + print str(e) + log.debug( "Creating user_action table failed: %s" % str( e ) ) + +def downgrade(): + metadata.reflect() + try: + UserAction_table.drop() + except Exception, e: + print str(e) + log.debug( "Dropping user_action table failed: %s" % str( e ) ) \ No newline at end of file diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/web/controllers/dataset.py --- a/lib/galaxy/web/controllers/dataset.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/web/controllers/dataset.py Mon Nov 30 17:53:25 2009 -0500 @@ -87,7 +87,7 @@ link=( lambda item: iff( item.history.deleted, None, dict( operation="switch", id=item.id ) ) ), filterable="advanced" ), HistoryColumn( "History", key="history", link=( lambda item: iff( item.history.deleted, None, dict( operation="switch_history", id=item.id ) ) ) ), - grids.TagsColumn( "Tags", "tags", model.HistoryDatasetAssociation, model.HistoryDatasetAssociationTagAssociation, filterable="advanced" ), + grids.TagsColumn( "Tags", "tags", model.HistoryDatasetAssociation, model.HistoryDatasetAssociationTagAssociation, filterable="advanced", grid_name="HistoryDatasetAssocationListGrid" ), StatusColumn( "Status", key="deleted", attach_popup=False ), grids.GridColumn( "Created", key="create_time", format=time_ago ), grids.GridColumn( "Last Updated", key="update_time", format=time_ago ), diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/web/controllers/history.py --- a/lib/galaxy/web/controllers/history.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/web/controllers/history.py Mon Nov 30 17:53:25 2009 -0500 @@ -94,7 +94,7 @@ link=( lambda history: iff( history.deleted, None, dict( operation="Switch", id=history.id ) ) ), attach_popup=True, filterable="advanced" ), DatasetsByStateColumn( "Datasets (by state)", ncells=4 ), - grids.TagsColumn( "Tags", "tags", model.History, model.HistoryTagAssociation, filterable="advanced"), + grids.TagsColumn( "Tags", "tags", model.History, model.HistoryTagAssociation, filterable="advanced", grid_name="HistoryListGrid" ), StatusColumn( "Status", attach_popup=False ), grids.GridColumn( "Created", key="create_time", format=time_ago ), grids.GridColumn( "Last Updated", key="update_time", format=time_ago ), diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/web/controllers/tag.py --- a/lib/galaxy/web/controllers/tag.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/web/controllers/tag.py Mon Nov 30 17:53:25 2009 -0500 @@ -28,28 +28,38 @@ @web.expose @web.require_login( "Add tag to an item." ) - def add_tag_async( self, trans, id=None, item_class=None, new_tag=None ): + def add_tag_async( self, trans, id=None, item_class=None, new_tag=None, context=None ): """ Add tag to an item. """ - item = self._get_item(trans, item_class, trans.security.decode_id(id)) - self._do_security_check(trans, item) + # Check that user owns item. + item = self._get_item(trans, item_class, trans.security.decode_id( id ) ) + self._do_security_check( trans, item ) + # Apply tag. self.tag_handler.apply_item_tags( trans.sa_session, item, new_tag.encode('utf-8') ) trans.sa_session.flush() + # Log. + params = dict( item_id=item.id, item_class=item_class, tag=new_tag) + trans.log_action( unicode( "tag"), context, params ) + @web.expose @web.require_login( "Remove tag from an item." ) - def remove_tag_async( self, trans, id=None, item_class=None, tag_name=None ): + def remove_tag_async( self, trans, id=None, item_class=None, tag_name=None, context=None ): """ Remove tag from an item. """ + + # Check that user owns item. item = self._get_item(trans, item_class, trans.security.decode_id(id)) - self._do_security_check(trans, item) + # Remove tag. self.tag_handler.remove_item_tag( trans, item, tag_name.encode('utf-8') ) - #print tag_name - #print unicode(tag_name) trans.sa_session.flush() + # Log. + params = dict( item_id=item.id, item_class=item_class, tag=tag_name) + trans.log_action( unicode( "untag"), context, params ) + # Retag an item. All previous tags are deleted and new tags are applied. @web.expose @web.require_login( "Apply a new set of tags to an item; previous tags are deleted." ) diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/web/framework/__init__.py --- a/lib/galaxy/web/framework/__init__.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/web/framework/__init__.py Mon Nov 30 17:53:25 2009 -0500 @@ -10,6 +10,7 @@ import base import pickle from galaxy import util +from galaxy.util.json import to_json_string pkg_resources.require( "simplejson" ) import simplejson @@ -170,6 +171,22 @@ to allow migration toward a more SQLAlchemy 0.4 style of use. """ return self.app.model.context.current + def log_action( self, action, context, params): + """ + Application-level logging of user actions. + """ + if self.app.config.log_actions: + action = self.app.model.UserAction(action=action, context=context, params=unicode( to_json_string( params ) ) ) + try: + action.user = self.user + except: + action.user = None + try: + action.session_id = self.galaxy_session.id + except: + action.session_id = None + self.sa_session.add( action ) + self.sa_session.flush() def log_event( self, message, tool_id=None, **kwargs ): """ Application level logging. Still needs fleshing out (log levels and such) diff -r 9d4945bbdcf5 -r f98643c26eb7 lib/galaxy/web/framework/helpers/grids.py --- a/lib/galaxy/web/framework/helpers/grids.py Mon Nov 30 15:33:45 2009 -0500 +++ b/lib/galaxy/web/framework/helpers/grids.py Mon Nov 30 17:53:25 2009 -0500 @@ -200,6 +200,13 @@ trans.get_user().preferences[pref_name] = unicode( to_json_string( sort_key ) ) trans.sa_session.flush() + # Log grid view. + context = unicode( self.__class__.__name__ ) + params = cur_filter_dict.copy() + params['sort'] = sort_key + params['async'] = ( 'async' in kwargs ) + trans.log_action( unicode( "grid.view"), context, params ) + # Render grid. def url( *args, **kwargs ): # Only include sort/filter arguments if not linking to another @@ -340,17 +347,19 @@ # Generic column that supports tagging. class TagsColumn( TextColumn ): - def __init__( self, col_name, key, model_class, model_tag_association_class, filterable ): + def __init__( self, col_name, key, model_class, model_tag_association_class, filterable, grid_name=None ): GridColumn.__init__(self, col_name, key=key, model_class=model_class, filterable=filterable) self.model_tag_association_class = model_tag_association_class # Tags cannot be sorted. self.sortable = False + # Column-specific attributes. self.tag_elt_id_gen = 0 + self.grid_name = grid_name def get_value( self, trans, grid, item ): self.tag_elt_id_gen += 1 elt_id="tagging-elt" + str( self.tag_elt_id_gen ) div_elt = "<div id=%s></div>" % elt_id - return div_elt + trans.fill_template( "/tagging_common.mako", trans=trans, tagged_item=item, + return div_elt + trans.fill_template( "/tagging_common.mako", trans=trans, tagged_item=item, elt_context=self.grid_name, elt_id = elt_id, in_form="true", input_size="20", tag_click_fn="add_tag_to_grid_filter" ) def filter( self, db_session, query, column_filter ): """ Modify query to filter model_class by tag. Multiple filters are ANDed. """ diff -r 9d4945bbdcf5 -r f98643c26eb7 templates/dataset/edit_attributes.mako --- a/templates/dataset/edit_attributes.mako Mon Nov 30 15:33:45 2009 -0500 +++ b/templates/dataset/edit_attributes.mako Mon Nov 30 17:53:25 2009 -0500 @@ -59,7 +59,7 @@ </div> <div style="clear: both"></div> </div> - ${render_tagging_element(data, "dataset-tag-area", use_toggle_link="false", in_form="true", input_size="30")} + ${render_tagging_element(data, "dataset-tag-area", "edit_attributes.mako", use_toggle_link="false", in_form="true", input_size="30")} %endif %for name, spec in data.metadata.spec.items(): %if spec.visible: diff -r 9d4945bbdcf5 -r f98643c26eb7 templates/history/view.mako --- a/templates/history/view.mako Mon Nov 30 15:33:45 2009 -0500 +++ b/templates/history/view.mako Mon Nov 30 17:53:25 2009 -0500 @@ -327,7 +327,7 @@ %if trans.get_user() is not None: <div id='history-tag-area' class="tag-element"></div> - ${render_tagging_element(history, "history-tag-area", use_toggle_link='false', get_toggle_link_text_fn='get_toggle_link_text', editable=user_owns_history)} + ${render_tagging_element(history, "history-tag-area", "history/view.mako", use_toggle_link='false', get_toggle_link_text_fn='get_toggle_link_text', editable=user_owns_history)} %endif %if not datasets: diff -r 9d4945bbdcf5 -r f98643c26eb7 templates/root/history.mako --- a/templates/root/history.mako Mon Nov 30 15:33:45 2009 -0500 +++ b/templates/root/history.mako Mon Nov 30 17:53:25 2009 -0500 @@ -325,7 +325,7 @@ %if trans.get_user() is not None: <div id='history-tag-area' class="tag-element"></div> - ${render_tagging_element(history, "history-tag-area", get_toggle_link_text_fn='get_toggle_link_text')} + ${render_tagging_element( tagged_item=history, elt_id="history-tag-area", elt_context="history.mako", get_toggle_link_text_fn='get_toggle_link_text' )} %endif %if not datasets: diff -r 9d4945bbdcf5 -r f98643c26eb7 templates/tagging_common.mako --- a/templates/tagging_common.mako Mon Nov 30 15:33:45 2009 -0500 +++ b/templates/tagging_common.mako Mon Nov 30 17:53:25 2009 -0500 @@ -1,10 +1,10 @@ ## Render a tagging element if there is a tagged_item. %if tagged_item is not None and elt_id is not None: - ${render_tagging_element(tagged_item, elt_id=elt_id, in_form=in_form, input_size=input_size, tag_click_fn=tag_click_fn)} + ${render_tagging_element(tagged_item=tagged_item, elt_id=elt_id, elt_context=elt_context, in_form=in_form, input_size=input_size, tag_click_fn=tag_click_fn)} %endif ## Render the tags 'tags' as an autocomplete element. -<%def name="render_tagging_element(tagged_item, elt_id, use_toggle_link='true', in_form='false', input_size='15', tag_click_fn='default_tag_click_fn', get_toggle_link_text_fn='default_get_toggle_link_text_fn', editable='true')"> +<%def name="render_tagging_element(tagged_item, elt_id, elt_context, use_toggle_link='true', in_form='false', input_size='15', tag_click_fn='default_tag_click_fn', get_toggle_link_text_fn='default_get_toggle_link_text_fn', editable='true')"> <script type="text/javascript"> // // Set up autocomplete tagger. @@ -75,8 +75,8 @@ tag_click_fn: ${tag_click_fn}, <% tagged_item_id = trans.security.encode_id(tagged_item.id) %> ajax_autocomplete_tag_url: "${h.url_for( controller='tag', action='tag_autocomplete_data', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", - ajax_add_tag_url: "${h.url_for( controller='tag', action='add_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", - ajax_delete_tag_url: "${h.url_for( controller='tag', action='remove_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__ )}", + ajax_add_tag_url: "${h.url_for( controller='tag', action='add_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__, context=elt_context )}", + ajax_delete_tag_url: "${h.url_for( controller='tag', action='remove_tag_async', id=tagged_item_id, item_class=tagged_item.__class__.__name__, context=elt_context )}", delete_tag_img: "${h.url_for('/static/images/delete_tag_icon_gray.png')}", delete_tag_img_rollover: "${h.url_for('/static/images/delete_tag_icon_white.png')}", add_tag_img: "${h.url_for('/static/images/add_icon.png')}", diff -r 9d4945bbdcf5 -r f98643c26eb7 universe_wsgi.ini.sample --- a/universe_wsgi.ini.sample Mon Nov 30 15:33:45 2009 -0500 +++ b/universe_wsgi.ini.sample Mon Nov 30 17:53:25 2009 -0500 @@ -144,6 +144,9 @@ # Log events log_events = True +# Log user actions +log_actions = True + # Configuration for debugging middleware debug = True use_lint = False

1 0

[hg] galaxy 3128: When setting metadata externally, substitute a...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/92d6a9796b24 changeset: 3128:92d6a9796b24 user: Dan Blankenberg <dan(a)bx.psu.edu> date: Mon Nov 30 14:55:30 2009 -0500 description: When setting metadata externally, substitute a MetadataTempFile object for all populated metadata FileParameters. Fixes the problem with writting to metadata FileParameter files on cluster nodes with read-only database/files directory. diffstat: lib/galaxy/datatypes/metadata.py | 21 +++- lib/galaxy/model/mapping.py | 1 + lib/galaxy/model/migrate/versions/0028_external_metadata_file_override.py | 47 +++++++++ scripts/set_metadata.py | 23 ++++- tools/regVariation/quality_filter.xml | 2 +- 5 files changed, 87 insertions(+), 7 deletions(-) diffs (172 lines): diff -r 9f7a2a3be0e7 -r 92d6a9796b24 lib/galaxy/datatypes/metadata.py --- a/lib/galaxy/datatypes/metadata.py Mon Nov 30 11:59:54 2009 -0500 +++ b/lib/galaxy/datatypes/metadata.py Mon Nov 30 14:55:30 2009 -0500 @@ -429,7 +429,9 @@ if MetadataTempFile.is_JSONified_value( value ): value = MetadataTempFile.from_JSON( value ) if isinstance( value, MetadataTempFile ): - mf = self.new_file( dataset = parent, **value.kwds ) + mf = parent.metadata.get( self.spec.name, None) + if mf is None: + mf = self.new_file( dataset = parent, **value.kwds ) shutil.move( value.file_name, mf.file_name ) value = mf.id return value @@ -521,7 +523,7 @@ if dataset_path.false_path and dataset_path.real_path == metadata_files.dataset.file_name: return dataset_path.false_path return "" - return "%s,%s,%s,%s,%s" % ( metadata_files.filename_in, metadata_files.filename_kwds, metadata_files.filename_out, metadata_files.filename_results_code, __get_filename_override() ) + return "%s,%s,%s,%s,%s,%s" % ( metadata_files.filename_in, metadata_files.filename_kwds, metadata_files.filename_out, metadata_files.filename_results_code, __get_filename_override(), metadata_files.filename_override_metadata ) if not isinstance( datasets, list ): datasets = [ datasets ] if exec_dir is None: @@ -558,11 +560,22 @@ open( metadata_files.filename_out, 'wb+' ) # create the file on disk, so it cannot be reused by tempfile (unlikely, but possible) #file to store a 'return code' indicating the results of the set_meta() call #results code is like (True/False - if setting metadata was successful/failed , exception or string of reason of success/failure ) - metadata_files.filename_results_code = relpath( tempfile.NamedTemporaryFile( dir = tmp_dir, prefix = "metadata_out_%s_" % key ).name ) + metadata_files.filename_results_code = relpath( tempfile.NamedTemporaryFile( dir = tmp_dir, prefix = "metadata_results_%s_" % key ).name ) simplejson.dump( ( False, 'External set_meta() not called' ), open( metadata_files.filename_results_code, 'wb+' ) ) # create the file on disk, so it cannot be reused by tempfile (unlikely, but possible) #file to store kwds passed to set_meta() metadata_files.filename_kwds = relpath( tempfile.NamedTemporaryFile( dir = tmp_dir, prefix = "metadata_kwds_%s_" % key ).name ) simplejson.dump( kwds, open( metadata_files.filename_kwds, 'wb+' ), ensure_ascii=True ) + #existing metadata file parameters need to be overridden with cluster-writable file locations + metadata_files.filename_override_metadata = relpath( tempfile.NamedTemporaryFile( dir = tmp_dir, prefix = "metadata_override_%s_" % key ).name ) + open( metadata_files.filename_override_metadata, 'wb+' ) # create the file on disk, so it cannot be reused by tempfile (unlikely, but possible) + override_metadata = [] + for meta_key, spec_value in dataset.metadata.spec.iteritems(): + if isinstance( spec_value.param, FileParameter ) and dataset.metadata.get( meta_key, None ) is not None: + metadata_temp = MetadataTempFile() + shutil.copy( dataset.metadata.get( meta_key, None ).file_name, metadata_temp.file_name ) + override_metadata.append( ( meta_key, metadata_temp.to_JSON() ) ) + simplejson.dump( override_metadata, open( metadata_files.filename_override_metadata, 'wb+' ) ) + #add to session and flush sa_session.add( metadata_files ) sa_session.flush() metadata_files_list.append( metadata_files ) @@ -585,7 +598,7 @@ #can occur if the job was stopped before completion, but a MetadataTempFile is used in the set_meta MetadataTempFile.cleanup_from_JSON_dict_filename( metadata_files.filename_out ) dataset_key = self.get_dataset_metadata_key( metadata_files.dataset ) - for key, fname in [ ( 'filename_in', metadata_files.filename_in ), ( 'filename_out', metadata_files.filename_out ), ( 'filename_results_code', metadata_files.filename_results_code ), ( 'filename_kwds', metadata_files.filename_kwds ) ]: + for key, fname in [ ( 'filename_in', metadata_files.filename_in ), ( 'filename_out', metadata_files.filename_out ), ( 'filename_results_code', metadata_files.filename_results_code ), ( 'filename_kwds', metadata_files.filename_kwds ), ( 'filename_override_metadata', metadata_files.filename_override_metadata ) ]: try: os.remove( fname ) except Exception, e: diff -r 9f7a2a3be0e7 -r 92d6a9796b24 lib/galaxy/model/mapping.py --- a/lib/galaxy/model/mapping.py Mon Nov 30 11:59:54 2009 -0500 +++ b/lib/galaxy/model/mapping.py Mon Nov 30 14:55:30 2009 -0500 @@ -358,6 +358,7 @@ Column( "filename_out", String( 255 ) ), Column( "filename_results_code", String( 255 ) ), Column( "filename_kwds", String( 255 ) ), + Column( "filename_override_metadata", String( 255 ) ), Column( "job_runner_external_pid", String( 255 ) ) ) Event.table = Table( "event", metadata, diff -r 9f7a2a3be0e7 -r 92d6a9796b24 lib/galaxy/model/migrate/versions/0028_external_metadata_file_override.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/lib/galaxy/model/migrate/versions/0028_external_metadata_file_override.py Mon Nov 30 14:55:30 2009 -0500 @@ -0,0 +1,47 @@ +""" +This script adds the filename_override_metadata column to the JobExternalOutputMetadata table, +allowing existing metadata files to be written when using external metadata and a cluster +set up with read-only access to database/files +""" +from sqlalchemy import * +from sqlalchemy.orm import * +from sqlalchemy.exceptions import * +from migrate import * +from migrate.changeset import * +import datetime +now = datetime.datetime.utcnow +import sys, logging +# Need our custom types, but don't import anything else from model +from galaxy.model.custom_types import * + +log = logging.getLogger( __name__ ) +log.setLevel(logging.DEBUG) +handler = logging.StreamHandler( sys.stdout ) +format = "%(name)s %(levelname)s %(asctime)s %(message)s" +formatter = logging.Formatter( format ) +handler.setFormatter( formatter ) +log.addHandler( handler ) + +metadata = MetaData( migrate_engine ) +db_session = scoped_session( sessionmaker( bind=migrate_engine, autoflush=False, autocommit=True ) ) + +def display_migration_details(): + print "========================================" + print "This script adds the filename_override_metadata column to the JobExternalOutputMetadata table," + print" allowing existing metadata files to be written when using external metadata and a cluster" + print "set up with read-only access to database/files" + print "========================================" +def upgrade(): + display_migration_details() + # Load existing tables + metadata.reflect() + try: + job_external_output_metadata = Table( "job_external_output_metadata", metadata, autoload=True ) + col = Column( "filename_override_metadata", String( 255 ) ) + col.create( job_external_output_metadata ) + assert col is job_external_output_metadata.c.filename_override_metadata + except Exception, e: + log.debug( "Adding column 'filename_override_metadata' to job_external_output_metadata table failed: %s" % ( str( e ) ) ) + +def downgrade(): + pass diff -r 9f7a2a3be0e7 -r 92d6a9796b24 scripts/set_metadata.py --- a/scripts/set_metadata.py Mon Nov 30 11:59:54 2009 -0500 +++ b/scripts/set_metadata.py Mon Nov 30 14:55:30 2009 -0500 @@ -50,17 +50,36 @@ except: continue for filenames in sys.argv[1:]: - filename_in, filename_kwds, filename_out, filename_results_code, dataset_filename_override = filenames.split( ',' ) + fields = filenames.split( ',' ) + filename_in = fields.pop( 0 ) + filename_kwds = fields.pop( 0 ) + filename_out = fields.pop( 0 ) + filename_results_code = fields.pop( 0 ) + dataset_filename_override = fields.pop( 0 ) + #Need to be careful with the way that these parameters are populated from the filename splitting, + #because if a job is running when the server is updated, any existing external metadata command-lines + #will not have info about the newly added override_metadata file + if fields: + override_metadata = fields.pop( 0 ) + else: + override_metadata = None try: dataset = cPickle.load( open( filename_in ) ) #load DatasetInstance if dataset_filename_override: dataset.dataset.external_filename = dataset_filename_override if ext_override.get( dataset.dataset.id, None ): dataset.extension = ext_override[ dataset.dataset.id ] + #Metadata FileParameter types may not be writable on a cluster node, and are therefore temporarily substituted with MetadataTempFiles + if override_metadata: + override_metadata = simplejson.load( open( override_metadata ) ) + for metadata_name, metadata_file_override in override_metadata: + if galaxy.datatypes.metadata.MetadataTempFile.is_JSONified_value( metadata_file_override ): + metadata_file_override = galaxy.datatypes.metadata.MetadataTempFile.from_JSON( metadata_file_override ) + setattr( dataset.metadata, metadata_name, metadata_file_override ) kwds = stringify_dictionary_keys( simplejson.load( open( filename_kwds ) ) )#load kwds; need to ensure our keywords are not unicode dataset.datatype.set_meta( dataset, **kwds ) dataset.metadata.to_JSON_dict( filename_out ) # write out results of set_meta - simplejson.dump( ( True, 'Metadata has been set successfully' ), open( filename_results_code, 'wb+' ) ) #setting metadata has suceeded + simplejson.dump( ( True, 'Metadata has been set successfully' ), open( filename_results_code, 'wb+' ) ) #setting metadata has succeeded except Exception, e: simplejson.dump( ( False, str( e ) ), open( filename_results_code, 'wb+' ) ) #setting metadata has failed somehow clear_mappers() diff -r 9f7a2a3be0e7 -r 92d6a9796b24 tools/regVariation/quality_filter.xml --- a/tools/regVariation/quality_filter.xml Mon Nov 30 11:59:54 2009 -0500 +++ b/tools/regVariation/quality_filter.xml Mon Nov 30 14:55:30 2009 -0500 @@ -61,7 +61,7 @@ </conditional> </inputs> <outputs> - <data format="maf" name="out_file1"/> + <data format="maf" name="out_file1" metadata_source="input"/> </outputs> <requirements> <requirement type="python-module">numpy</requirement>

1 0

[hg] galaxy 3129: Fix MAF to BED tool. This tool should be rewri...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/9d4945bbdcf5 changeset: 3129:9d4945bbdcf5 user: Dan Blankenberg <dan(a)bx.psu.edu> date: Mon Nov 30 15:33:45 2009 -0500 description: Fix MAF to BED tool. This tool should be rewritten to not use a code file, but instead use one of the standard ways to create additional outputs, similar to how maf_to_interval functions. diffstat: tools/maf/maf_to_bed.py | 3 +-- tools/maf/maf_to_bed.xml | 4 ++-- tools/maf/maf_to_bed_code.py | 1 + 3 files changed, 4 insertions(+), 4 deletions(-) diffs (36 lines): diff -r 92d6a9796b24 -r 9d4945bbdcf5 tools/maf/maf_to_bed.py --- a/tools/maf/maf_to_bed.py Mon Nov 30 14:55:30 2009 -0500 +++ b/tools/maf/maf_to_bed.py Mon Nov 30 15:33:45 2009 -0500 @@ -15,8 +15,7 @@ input_filename = sys.argv[1] output_filename = sys.argv[2] #where to store files that become additional output - database_tmp_dir = './database/tmp' #os.path.join(os.path.split(os.path.split(os.path.realpath(output_filename))[0])[0],'tmp') #database/tmp - + database_tmp_dir = sys.argv[5] species = sys.argv[3].split(',') partial = sys.argv[4] diff -r 92d6a9796b24 -r 9d4945bbdcf5 tools/maf/maf_to_bed.xml --- a/tools/maf/maf_to_bed.xml Mon Nov 30 14:55:30 2009 -0500 +++ b/tools/maf/maf_to_bed.xml Mon Nov 30 15:33:45 2009 -0500 @@ -1,6 +1,6 @@ -<tool id="MAF_To_BED1" name="Maf to BED"> +<tool id="MAF_To_BED1" name="Maf to BED" force_history_refresh="True"> <description>Converts a MAF formated file to the BED format</description> - <command interpreter="python">maf_to_bed.py $input1 $out_file1 $species $complete_blocks</command> + <command interpreter="python">maf_to_bed.py $input1 $out_file1 $species $complete_blocks $__new_file_path__</command> <inputs> <param format="maf" name="input1" type="data" label="MAF file to convert"/> <param name="species" type="select" label="Select species" display="checkboxes" multiple="true" help="a separate history item will be created for each checked species"> diff -r 92d6a9796b24 -r 9d4945bbdcf5 tools/maf/maf_to_bed_code.py --- a/tools/maf/maf_to_bed_code.py Mon Nov 30 14:55:30 2009 -0500 +++ b/tools/maf/maf_to_bed_code.py Mon Nov 30 15:33:45 2009 -0500 @@ -46,6 +46,7 @@ newdata.state = newdata.states.ERROR newdata.dbkey = dbkey newdata.init_meta() + newdata.set_meta() newdata.set_peek() app.model.context.flush() output_data_list.append(newdata)

1 0

[hg] galaxy 3127: Fixed a bug in 'fetch closest features' tool.
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/9f7a2a3be0e7 changeset: 3127:9f7a2a3be0e7 user: guru date: Mon Nov 30 11:59:54 2009 -0500 description: Fixed a bug in 'fetch closest features' tool. diffstat: tools/new_operations/flanking_features.py | 5 ++--- 1 files changed, 2 insertions(+), 3 deletions(-) diffs (22 lines): diff -r 71b779fde315 -r 9f7a2a3be0e7 tools/new_operations/flanking_features.py --- a/tools/new_operations/flanking_features.py Mon Nov 30 11:56:58 2009 -0500 +++ b/tools/new_operations/flanking_features.py Mon Nov 30 11:59:54 2009 -0500 @@ -121,7 +121,7 @@ map(outfields.append, result_down[-1].other) #The last element of result_down will be the closest element to the given interval yield outfields - if either: + if either and (result_up or result_down): if result_up and result_down: if abs(start - int(result_up[res_ind].end)) <= abs(end - int(result_down[-1].start)): map(outfields.append, result_up[res_ind].other) @@ -131,8 +131,7 @@ map(outfields.append, result_up[res_ind].other) elif result_down: map(outfields.append, result_down[-1].other) #The last element of result_down will be the closest element to the given interval - yield outfields - + yield outfields def main(): options, args = doc_optparse.parse( __doc__ )

1 0

[hg] galaxy 3123: First pass of the lastz tool wrapper that incl...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/efdb6fb5de34 changeset: 3123:efdb6fb5de34 user: Greg Von Kuster <greg(a)bx.psu.edu> date: Fri Nov 27 10:53:50 2009 -0500 description: First pass of the lastz tool wrapper that includes job splitting - works but needs polishing. diffstat: test-data/B1.fa | 1000 ---------------------------------------- test-data/b1.fasta | 1000 ++++++++++++++++++++++++++++++++++++++++ test-data/lastz_wrapper_out1.sam | 494 +++++++++++++++++++ test-data/lastz_wrapper_out3.tabular | 26 + test-data/phiX.fa | 79 --- test-data/phiX.fasta | 79 +++ tool-data/lastz_seqs.loc | 2 + tool_conf.xml.sample | 2 +- tools/sr_mapping/bwa_wrapper.xml | 2 +- tools/sr_mapping/lastz_wrapper.py | 133 +++++ tools/sr_mapping/lastz_wrapper.xml | 300 +++++++---- 11 files changed, 1913 insertions(+), 1204 deletions(-) diffs (truncated from 3185 to 3000 lines): diff -r 8d149264b777 -r efdb6fb5de34 test-data/B1.fa --- a/test-data/B1.fa Wed Nov 25 14:06:28 2009 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1000 +0,0 @@ ->HWI-EAS91_1_306UPAAXX:6:1:1503:1160 -GGTGGTCTATAGTGTTATTAATATCAAGTTGGGGGG ->HWI-EAS91_1_306UPAAXX:6:1:1564:1179 -GCGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCAT ->HWI-EAS91_1_306UPAAXX:6:1:1704:1082 -GATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTC ->HWI-EAS91_1_306UPAAXX:6:1:1588:1797 -GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT ->HWI-EAS91_1_306UPAAXX:6:1:1304:1526 -GTAGTTGAAATGGTAATAAGACGACCAATCTGACCT ->HWI-EAS91_1_306UPAAXX:6:1:1490:1582 -GTCGTGTTCAACAGACCTATAAACATTCTGTGCCGC ->HWI-EAS91_1_306UPAAXX:6:1:1356:1339 -GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC ->HWI-EAS91_1_306UPAAXX:6:1:1311:853 -GGTTGGTTTATCGTTTTTGACACTCTCACGTTGTCT ->HWI-EAS91_1_306UPAAXX:6:1:1257:1552 -GTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTC ->HWI-EAS91_1_306UPAAXX:6:1:1486:1402 -GTTACTGAGAAGTTAATGGATGAATTGGCACAATGC ->HWI-EAS91_1_306UPAAXX:6:1:1028:1081 -GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT ->HWI-EAS91_1_306UPAAXX:6:1:1167:752 -GGTTTTCTTCATTGCATTCAGATGGATACATCTGTC ->HWI-EAS91_1_306UPAAXX:6:1:1507:1113 -GTCAACGTTATATTTTGATAGTTTGACGGTTAATTC ->HWI-EAS91_1_306UPAAXX:6:1:1654:1311 -GGATGAAAATGCTCACAATGACAAATCTGTCCACGG ->HWI-EAS91_1_306UPAAXX:6:1:1386:1060 -GTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTT ->HWI-EAS91_1_306UPAAXX:6:1:1070:1356 -GGTTACAGTATGCCCATCGCAGTTCGCTACACGCAG ->HWI-EAS91_1_306UPAAXX:6:1:787:1032 -GCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCA ->HWI-EAS91_1_306UPAAXX:6:1:834:1017 -GCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGT ->HWI-EAS91_1_306UPAAXX:6:1:1703:1155 -GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT ->HWI-EAS91_1_306UPAAXX:6:1:1406:593 -GTTGAGTTCGATAATGGTGATATGTATGTTTACGGC ->HWI-EAS91_1_306UPAAXX:6:1:1411:886 -GTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCAT ->HWI-EAS91_1_306UPAAXX:6:1:923:972 -GCATGACAAGTAAAGGACGGTTGTCAGCGTCATAAG ->HWI-EAS91_1_306UPAAXX:6:1:1279:1004 -GCCATAGCACCAGAAACAAAACTAGGGGCGGCCTCT ->HWI-EAS91_1_306UPAAXX:6:1:1070:840 -GGTTGTCAGCGTCATAAGAGGTTTTACCTCCAAATG ->HWI-EAS91_1_306UPAAXX:6:1:1595:1040 -GTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGT ->HWI-EAS91_1_306UPAAXX:6:1:1002:559 -GAGATTGCCGAGATGCAAAATGAGACTCAAAAAGAG ->HWI-EAS91_1_306UPAAXX:6:1:999:974 -GTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGC ->HWI-EAS91_1_306UPAAXX:6:1:896:982 -GTGGCTGGAGACAAATAATCTCTTTAATAACCTTAT ->HWI-EAS91_1_306UPAAXX:6:1:1366:741 -GTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGC ->HWI-EAS91_1_306UPAAXX:6:1:749:1469 -GTTTATGGTGAACAGTGGATTAAGTTCATGAAGGAT ->HWI-EAS91_1_306UPAAXX:6:1:1010:592 -GAGTTTATTGCTGCCGTCATTGCTTATTATGTTCAT ->HWI-EAS91_1_306UPAAXX:6:1:1393:650 -GTGACTCATATCTAAACCAGTCCTTGACGAACGTGC ->HWI-EAS91_1_306UPAAXX:6:1:1238:1731 -GAGAAATAAAAGTCTGAAACATGATTAAACTCCTAA ->HWI-EAS91_1_306UPAAXX:6:1:1629:908 -GATGCGGTTATCCATCTGCTTATGGAAGCCAAGCAT ->HWI-EAS91_1_306UPAAXX:6:1:1560:849 -GCTGTCGCTACTTCCCAAGAAGCTGTTCAGAATCAG ->HWI-EAS91_1_306UPAAXX:6:1:1029:783 -GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT ->HWI-EAS91_1_306UPAAXX:6:1:1152:1324 -GACAATCAGAAAGAGATTGCCGAGATGCAAAATGAG ->HWI-EAS91_1_306UPAAXX:6:1:1614:2042 -GAAATGCCACAAGCCTCAATAGCAGGTTTAAGAGCC ->HWI-EAS91_1_306UPAAXX:6:1:1398:439 -GATGGTTGGTTTATCGTTTTTGACACTCTCACGTTG ->HWI-EAS91_1_306UPAAXX:6:1:955:616 -GACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGC ->HWI-EAS91_1_306UPAAXX:6:1:1672:753 -GAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCT ->HWI-EAS91_1_306UPAAXX:6:1:1195:1293 -GCAATGCGACAGGCTCATGCTGATGGTTGGTTTATC ->HWI-EAS91_1_306UPAAXX:6:1:1074:755 -GCAAGAGTAAACATAGTGCCATGCTCAGGAACAAAG ->HWI-EAS91_1_306UPAAXX:6:1:984:499 -GACTTAGTTCATCAGCAAACGCAGAATCAGCGGTAT ->HWI-EAS91_1_306UPAAXX:6:1:1452:1833 -GCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGT ->HWI-EAS91_1_306UPAAXX:6:1:863:710 -GAGTTCGATAATGGTGATATGTATGTTGACGGCCAT ->HWI-EAS91_1_306UPAAXX:6:1:885:649 -GCAGAAGTTAACACTTTCGGATATTTCTGATGAGTC ->HWI-EAS91_1_306UPAAXX:6:1:917:1214 -GACAGATGTATCCATCTGAATGCAATGAAGAAAACC ->HWI-EAS91_1_306UPAAXX:6:1:892:1254 -GCTCAGGAAATGCAGCAGCAAGATAATCACGAGTAT ->HWI-EAS91_1_306UPAAXX:6:1:1555:1005 -GCATTTGGCGCATAATCTCGGAAACCTGCTGTTGCT ->HWI-EAS91_1_306UPAAXX:6:1:1637:1413 -GATGCTGTTCAACCACTAATAGGTAAGAAATCATGT ->HWI-EAS91_1_306UPAAXX:6:1:1102:1567 -GGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAA ->HWI-EAS91_1_306UPAAXX:6:1:799:1337 -GTATATGCACAAAATGAGATGCTTGCTTATCAACAG ->HWI-EAS91_1_306UPAAXX:6:1:1353:1843 -GCAGACCCATAATGTCAATAGATGTGGTAGAAGTCG ->HWI-EAS91_1_306UPAAXX:6:1:1196:789 -GCGGCATACGCTCGGCGCCAGTTTGAATATTAGACA ->HWI-EAS91_1_306UPAAXX:6:1:1056:1676 -GTAAAATACTGACCAGCCGTTTGAGCTTGAGTAAGC ->HWI-EAS91_1_306UPAAXX:6:1:1349:1836 -GGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTC ->HWI-EAS91_1_306UPAAXX:6:1:1027:788 -GGTGTTAATGCCACTCCTCTCCCGACTGTTAACACT ->HWI-EAS91_1_306UPAAXX:6:1:990:1283 -GCTTAGGGATTTTATTGGTATCAGGGTTAATCGTGC ->HWI-EAS91_1_306UPAAXX:6:1:904:939 -GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT ->HWI-EAS91_1_306UPAAXX:6:1:1732:793 -GTCAACATACATATCACCATTATCGAACTCAACGCC ->HWI-EAS91_1_306UPAAXX:6:1:1355:2003 -GTTAGACCAAACCATGAAACCAACATAAACATTATT ->HWI-EAS91_1_306UPAAXX:6:1:1337:977 -GCACCAGAAACAAAACTAGGGGCGGCCTCATCAGGG ->HWI-EAS91_1_306UPAAXX:6:1:1605:1175 -GGAGGTAAAACCTCTTATGACGCTGACAACCGTCCT ->HWI-EAS91_1_306UPAAXX:6:1:1763:1192 -GACAGGCCGTTTGAATGTTGACGGGATGAACATAAT ->HWI-EAS91_1_306UPAAXX:6:1:722:483 -GTTATTATACCGTCAAGGACTGTGTGACTATTGACT ->HWI-EAS91_1_306UPAAXX:6:1:1760:1136 -GCAAAGCATTGGGATTATCATAAAACGCCTCTAATC ->HWI-EAS91_1_306UPAAXX:6:1:1088:798 -GGAAACCTGCTGTTGCTTGGAAAGATTGGTGTTTTC ->HWI-EAS91_1_306UPAAXX:6:1:633:1076 -GCTACTTCCCAAGAAGCTGTTCAGAATCAGAATGAG ->HWI-EAS91_1_306UPAAXX:6:1:673:754 -GTCATGGAAGCGATAAAACTCTGCAGGTTGGATATT ->HWI-EAS91_1_306UPAAXX:6:1:1759:2019 -GTAAAGGACGGTTGTCAGCGTCATAAGAGGTTTTAC ->HWI-EAS91_1_306UPAAXX:6:1:1064:1797 -GCGGTTATCCATCTGCTTATGGAAGCCAAGCATTGG ->HWI-EAS91_1_306UPAAXX:6:1:1112:1669 -GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACT ->HWI-EAS91_1_306UPAAXX:6:1:510:1447 -GCATTAAGCTCAGGAAATGCAGCAGCAAGATAATCA ->HWI-EAS91_1_306UPAAXX:6:1:877:1573 -GTGCTATTGCTGGCGGTATTTCTTCTTCTTTTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:870:542 -GAATGTCACGCTGATTATTTTGACTTTGAGCGTATC ->HWI-EAS91_1_306UPAAXX:6:1:966:384 -GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA ->HWI-EAS91_1_306UPAAXX:6:1:1186:1903 -GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG ->HWI-EAS91_1_306UPAAXX:6:1:1632:1742 -GCATCACCCATGCCTACAGTATTGTTATCGGTAGCC ->HWI-EAS91_1_306UPAAXX:6:1:1521:559 -GAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGCC ->HWI-EAS91_1_306UPAAXX:6:1:683:454 -GCTTATTATGTTCATCCCGTCAACATTCAAACGTCC ->HWI-EAS91_1_306UPAAXX:6:1:112:1280 -GTTGGCGCTCTCCGTCTTTCTCCATTTCGTCGTGTC ->HWI-EAS91_1_306UPAAXX:6:1:891:381 -GACCAGGGCGAGCGCCAGAACGTTTTTTACCTTTAG ->HWI-EAS91_1_306UPAAXX:6:1:1348:958 -GATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTT ->HWI-EAS91_1_306UPAAXX:6:1:1785:1915 -GCCCCGAAGGGGACNANAAATGGTTTTTAGAGAACG ->HWI-EAS91_1_306UPAAXX:6:1:1418:42 -GTATGCCCATCGCAGTTCGCTACACGCAGGACGCTT ->HWI-EAS91_1_306UPAAXX:6:1:1421:743 -GGTCAACGCTACCTGTAGGAAGTGTCCGCATAAAAT ->HWI-EAS91_1_306UPAAXX:6:1:1079:790 -GCCAAATGCTTACTCAAGCTCAAACGGCTGGTCAGT ->HWI-EAS91_1_306UPAAXX:6:1:663:740 -GGTATTAAGGATGAGTGTTCAAGATTGCTGGATGCC ->HWI-EAS91_1_306UPAAXX:6:1:1245:413 -GTTTGAATGTTGACGGGATGAACATAATAAGCAATG ->HWI-EAS91_1_306UPAAXX:6:1:1378:1035 -GCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGG ->HWI-EAS91_1_306UPAAXX:6:1:903:1746 -GTACGGGGAAGGACGTCAATAGTCACACAGTCCTTG ->HWI-EAS91_1_306UPAAXX:6:1:1713:1134 -GGCGTACGGGGAAGGACGTCAATAGTCACACAGTCC ->HWI-EAS91_1_306UPAAXX:6:1:1246:1887 -GCTCTAATCTCTGGGCATCTGGCTATGATGTTGATG ->HWI-EAS91_1_306UPAAXX:6:1:872:1731 -GGGCGGCCTCATCAGGGTTAGGAACATTAGAGCCTT ->HWI-EAS91_1_306UPAAXX:6:1:1714:1582 -GCTTTCCTGCTCCTGTTGAGTTTATTGCTTCCGTCT ->HWI-EAS91_1_306UPAAXX:6:1:1785:763 -GNCGAGAAATAAAANNNTGAAACATGATTAAANTCC ->HWI-EAS91_1_306UPAAXX:6:1:1684:542 -GAAAAGACAGAATCTCTTCCAAGAGCTTGATGCGGT ->HWI-EAS91_1_306UPAAXX:6:1:1581:1665 -GACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATT ->HWI-EAS91_1_306UPAAXX:6:1:901:1581 -GTGCTGATATTGCTTTTGATGCCGACCCTAAATTTT ->HWI-EAS91_1_306UPAAXX:6:1:1128:239 -GGTTATTATACCGTCAAGGACTGTGTGACTATTGAC ->HWI-EAS91_1_306UPAAXX:6:1:969:441 -GGTAAGAAATCATGAGTCAAGTTACTGAACAATCCG ->HWI-EAS91_1_306UPAAXX:6:1:630:1087 -GCCACCATGATTATGACCAGTGTTTCCAGTCCGTTC ->HWI-EAS91_1_306UPAAXX:6:1:606:1852 -GGAGACAAATAATCTCTTTAATAACCTGATTCAGCG ->HWI-EAS91_1_306UPAAXX:6:1:489:1315 -GAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAC ->HWI-EAS91_1_306UPAAXX:6:1:465:1983 -GAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAA ->HWI-EAS91_1_306UPAAXX:6:1:559:1028 -GAGTGCTTAATCCAACTTACCAAGCTGGGTTACGAC ->HWI-EAS91_1_306UPAAXX:6:1:1655:1413 -GTATGTTGACGGCCATAAGGCTGCTTCTGACGTTCG ->HWI-EAS91_1_306UPAAXX:6:1:980:605 -GCCGTTTGAATGTTGACGGGATGAACATAATAAGCA ->HWI-EAS91_1_306UPAAXX:6:1:1629:1865 -GAAAAGCGGCATGGTCAATATAACCAGTAGTGTTAT ->HWI-EAS91_1_306UPAAXX:6:1:1180:1920 -GCACTCCGTGGACAGATTTGTCATTGTGAGCATTTT ->HWI-EAS91_1_306UPAAXX:6:1:1116:383 -GCGCAGGAAACACTGACGTTCTTACTGACGCAGAAG ->HWI-EAS91_1_306UPAAXX:6:1:906:2041 -GTCACGTTTATGGTGAACAGTGGATTAAGTTCATGA ->HWI-EAS91_1_306UPAAXX:6:1:1514:157 -GTCAATAGATGTGGTAGAAGTCGTCATTTGGCGTGG ->HWI-EAS91_1_306UPAAXX:6:1:1032:1857 -GCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGT ->HWI-EAS91_1_306UPAAXX:6:1:638:609 -GATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAT ->HWI-EAS91_1_306UPAAXX:6:1:74:750 -GATAATCACGAGTATCCTTTCCTTTATCATCTTCAT ->HWI-EAS91_1_306UPAAXX:6:1:486:822 -GTTGACGATGTAGCTTTAGGTGTCTTTAAAACAGGT ->HWI-EAS91_1_306UPAAXX:6:1:899:473 -GAACAGCATCGGACTCAGATAGTAATCCACGCTCTT ->HWI-EAS91_1_306UPAAXX:6:1:1613:197 -GTGACATTCAGAAGGGTAATAAGAACGAACCATAAA ->HWI-EAS91_1_306UPAAXX:6:1:326:1747 -GTTGAGGCTTTCGTTTATTGTACGCTTTGCTTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:1487:526 -GCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT ->HWI-EAS91_1_306UPAAXX:6:1:629:665 -GAAATGCAGCAGCAAGATAATCACGAGTATCCTTTC ->HWI-EAS91_1_306UPAAXX:6:1:766:744 -GGCCGTCAACATACATATCACCATTATCGAACTCAA ->HWI-EAS91_1_306UPAAXX:6:1:391:1771 -GTGGTTGATATTTTTCATGGTATTGATAAATCTTTT ->HWI-EAS91_1_306UPAAXX:6:1:591:1102 -GCTTTGCGTGACTATTTTCGTGATATTGTTCGTTTG ->HWI-EAS91_1_306UPAAXX:6:1:917:664 -GCCATGATGGTGGTTATTATACCGTCAAGGACTGTG ->HWI-EAS91_1_306UPAAXX:6:1:217:737 -GTTCAGTTGTTGCATTGGAATATTCAGTTTAAATTT ->HWI-EAS91_1_306UPAAXX:6:1:1047:839 -GACCATTCAAAGGATAAACATCATAGGCAGTCGGGG ->HWI-EAS91_1_306UPAAXX:6:1:558:1040 -GCCACCAGCAAGAGCAGAAGCAATACCGCCAGCAAT ->HWI-EAS91_1_306UPAAXX:6:1:1207:524 -GCCAATACCATCAGCTTTACCGTCTTTCCAGAAATT ->HWI-EAS91_1_306UPAAXX:6:1:708:1634 -GCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAG ->HWI-EAS91_1_306UPAAXX:6:1:576:1851 -GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAG ->HWI-EAS91_1_306UPAAXX:6:1:906:460 -GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC ->HWI-EAS91_1_306UPAAXX:6:1:693:1260 -GCGAAAGGTCGCAAAGTAAGAGCTTCTCGAGCTGCG ->HWI-EAS91_1_306UPAAXX:6:1:1373:286 -GGACACTTCCTACAGGTAGCGTTGACCCTAATTTTG ->HWI-EAS91_1_306UPAAXX:6:1:762:41 -GATACTTGGAACAATTTCTGGAAAGACGGTAAAGCT ->HWI-EAS91_1_306UPAAXX:6:1:475:1091 -GTCACACAGTCCTTGACGGTATAATAACCACCATCT ->HWI-EAS91_1_306UPAAXX:6:1:791:627 -GCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACC ->HWI-EAS91_1_306UPAAXX:6:1:336:1791 -GAAGGAGTCGCCAGCGATAACCGGAGTAGTTGAAAT ->HWI-EAS91_1_306UPAAXX:6:1:1483:943 -GCACGTAATTTTTGACGCACGTTTTCTTCTGCGTCT ->HWI-EAS91_1_306UPAAXX:6:1:641:1071 -GATGGGCATACTGTAACCATAAGGCCACGTATTTTG ->HWI-EAS91_1_306UPAAXX:6:1:196:755 -GAACGCCCTCTTAAGGATATTCGCGATGAGTATAAT ->HWI-EAS91_1_306UPAAXX:6:1:463:1398 -GTCATAAGAGGTTTTACCTCCAAATGAAGAAATAAC ->HWI-EAS91_1_306UPAAXX:6:1:1559:460 -GCTCACAATGACAAATCTGTCCACGGAGTGCTTAAT ->HWI-EAS91_1_306UPAAXX:6:1:1625:1561 -GAGGAGTGGCATTAACACCATCCTTCATGAACTTAC ->HWI-EAS91_1_306UPAAXX:6:1:1729:1588 -GCTGATAAAGGAAAGGATACTCGTGATTATCTTGCT ->HWI-EAS91_1_306UPAAXX:6:1:945:393 -GGCCTCATCAGGGTTAGGAACATTAGAGCCTTGAAT ->HWI-EAS91_1_306UPAAXX:6:1:298:1391 -GTAAAGTTAGACCAAACCATGAAACCAACATAAACA ->HWI-EAS91_1_306UPAAXX:6:1:1270:1500 -GAATTACTACTGCTTGTTTACGAATTAAATATATGT ->HWI-EAS91_1_306UPAAXX:6:1:481:1546 -GCTGGCATTCAGTCGGCGACTTCACGCCAGAATACG ->HWI-EAS91_1_306UPAAXX:6:1:473:1729 -GTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAT ->HWI-EAS91_1_306UPAAXX:6:1:801:1831 -GCTGAGGTTGACTTAGTTCATCAGCAAACGCAGAAT ->HWI-EAS91_1_306UPAAXX:6:1:536:639 -GCCGACCCTAAATTTTTTGCCTGTTTGGTTCTCTTT ->HWI-EAS91_1_306UPAAXX:6:1:259:938 -GTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTG ->HWI-EAS91_1_306UPAAXX:6:1:907:1513 -GGCATGGGTGATGCTGGTATTAAATCTGCCATTCAC ->HWI-EAS91_1_306UPAAXX:6:1:372:1409 -GATGAGTATAATTACCCCAAAAAGAAAGGTATTAAG ->HWI-EAS91_1_306UPAAXX:6:1:485:1626 -GATGGCAGCAACGGAAACCATAACGAGCATCATCTT ->HWI-EAS91_1_306UPAAXX:6:1:583:1679 -GCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAG ->HWI-EAS91_1_306UPAAXX:6:1:690:1610 -GACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTT ->HWI-EAS91_1_306UPAAXX:6:1:257:918 -GCAGGCTGGCACTTCTGCCGTTTCTGATAAGTTTCT ->HWI-EAS91_1_306UPAAXX:6:1:818:33 -GTGTTAATGCCACTCCTCTCCCGACTGTTAACTCTG ->HWI-EAS91_1_306UPAAXX:6:1:541:1242 -GGGATTATCATAAAACGCCTCTAATCGGTCGTCAGC ->HWI-EAS91_1_306UPAAXX:6:1:1014:279 -GTAAAAATGTCTACAGTAGAGTCAATAGCAAGGCCC ->HWI-EAS91_1_306UPAAXX:6:1:672:1790 -GGCCGTTTGAATGTTGACGGGATGAACATAATAAGC ->HWI-EAS91_1_306UPAAXX:6:1:708:464 -GGAGACAAATAATCTCTTTAATAACCTGATTCAGCG ->HWI-EAS91_1_306UPAAXX:6:1:633:1486 -GGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTT ->HWI-EAS91_1_306UPAAXX:6:1:328:696 -GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT ->HWI-EAS91_1_306UPAAXX:6:1:259:1389 -GCGTACTTATTCGCCACCATGATTATTACCAGTGTT ->HWI-EAS91_1_306UPAAXX:6:1:1315:41 -GCTTTCCGTGATGTCACAGCCTGCTTTGATGTGTCG ->HWI-EAS91_1_306UPAAXX:6:1:1647:549 -GCTTAATCCAACTTACCAAGCTGGGTTACGACGCGC ->HWI-EAS91_1_306UPAAXX:6:1:300:886 -GTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTT ->HWI-EAS91_1_306UPAAXX:6:1:317:1411 -GTACGCTGTACTTTGTGGGATACCCTCGCTTTCCTT ->HWI-EAS91_1_306UPAAXX:6:1:321:1819 -GGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGT ->HWI-EAS91_1_306UPAAXX:6:1:631:70 -GTGGATTACTATCTGAGTCCGATGCTGTTCAACCAC ->HWI-EAS91_1_306UPAAXX:6:1:624:1040 -GCTGGCGACTCCTTCGAGATGGACGCCGTTTGCGCT ->HWI-EAS91_1_306UPAAXX:6:1:662:1187 -GGGAGAGGAGTGGCATTAACACCATCCTTCATGACC ->HWI-EAS91_1_306UPAAXX:6:1:1440:1959 -GAATCAGCGGTATGGCTCCTCTCCTATTTTTGCTTC ->HWI-EAS91_1_306UPAAXX:6:1:458:1629 -GCTGGTGGCGCCATGTCTAAATTTTTTGGAGGCGGT ->HWI-EAS91_1_306UPAAXX:6:1:216:790 -GGGATGAAAATGCTCACAATGACAAATCTGTCCACG ->HWI-EAS91_1_306UPAAXX:6:1:1407:1174 -TTACCTATTAGTGGTTGAACAGCATCGGACTCAGAT ->HWI-EAS91_1_306UPAAXX:6:1:999:1790 -GTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTC ->HWI-EAS91_1_306UPAAXX:6:1:141:1994 -GGCTTTTTTATGGTTCGTTCTTATTACCCTTCTTAT ->HWI-EAS91_1_306UPAAXX:6:1:225:465 -GTCAGATATGGACCTTGCTGCTAAAGGTCTAGGAGC ->HWI-EAS91_1_306UPAAXX:6:1:649:1760 -GACCCATAATGTCAATAGATGTGGTAGAAGTCGTCT ->HWI-EAS91_1_306UPAAXX:6:1:300:986 -GTTGAACACGACCAGAAAACTGGCCTAACGACGTTT ->HWI-EAS91_1_306UPAAXX:6:1:478:605 -GAGACTGAGCTTTCTCGCCAAATGACGACTTCTACC ->HWI-EAS91_1_306UPAAXX:6:1:622:395 -GGTAGCTTTAAGCGGCTCACCTTTAGCATCAACAGG ->HWI-EAS91_1_306UPAAXX:6:1:1701:574 -GTAAAGCCTCTACGCGATTTCATAGTGGAGGCCTCC ->HWI-EAS91_1_306UPAAXX:6:1:646:59 -GGAAGTGTCCGCATAAAATGCACCGCATGGAAATGT ->HWI-EAS91_1_306UPAAXX:6:1:284:2031 -GACAGAATCGTTAGTTGATGGCGAAAGGTCGCAAAG ->HWI-EAS91_1_306UPAAXX:6:1:22:1009 -GATGGATACATCTGTCAACGCCGCTAATCAGGTTGT ->HWI-EAS91_1_306UPAAXX:6:1:47:1826 -GCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCG ->HWI-EAS91_1_306UPAAXX:6:1:1025:1236 -TGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGT ->HWI-EAS91_1_306UPAAXX:6:1:773:591 -GAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAGCG ->HWI-EAS91_1_306UPAAXX:6:1:1753:527 -GGTGGCATTCAAGGTGATGTGCTTGCTACCGATAAC ->HWI-EAS91_1_306UPAAXX:6:1:426:1717 -GTAGCGCCAATATGAGAAGAGCCATACCGCTGATTC ->HWI-EAS91_1_306UPAAXX:6:1:959:818 -TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC ->HWI-EAS91_1_306UPAAXX:6:1:459:1344 -GCCTATGATGTTTATCCTTTGAATGGTCGCCATGAT ->HWI-EAS91_1_306UPAAXX:6:1:973:1367 -TTCGTGATGAGTTTGTATCTGTTACTGATAAGTTAT ->HWI-EAS91_1_306UPAAXX:6:1:201:871 -GATTAGAGGCGTTTTATGATAATCCCAATGCTTTTC ->HWI-EAS91_1_306UPAAXX:6:1:713:1672 -GGCGTACGGGGAAGGACGTCAATAGTCACACAGTCC ->HWI-EAS91_1_306UPAAXX:6:1:444:1435 -TTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGTG ->HWI-EAS91_1_306UPAAXX:6:1:288:1136 -GCCTTCCATGATGAGACAGGCCGTTTTAATTTTTTC ->HWI-EAS91_1_306UPAAXX:6:1:1653:225 -GCAAGGCCACGACGCAATGGAGAAAGACGGAGAGCG ->HWI-EAS91_1_306UPAAXX:6:1:537:1764 -GCTCCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAA ->HWI-EAS91_1_306UPAAXX:6:1:196:1854 -GTATCGAGGCTCTTAAACCTGCTATTTAGGCTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:312:1707 -GCGTCATAAGAGGTTTTACCTCCAAATGAAGAAATA ->HWI-EAS91_1_306UPAAXX:6:1:651:183 -GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT ->HWI-EAS91_1_306UPAAXX:6:1:295:694 -GTGATTACTTCATGCAGCGTTACCGTGATGTTATTT ->HWI-EAS91_1_306UPAAXX:6:1:330:1895 -GCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTG ->HWI-EAS91_1_306UPAAXX:6:1:590:331 -GAAATTTCTATGAATGATGTTTTCCGTTCTGGTGAT ->HWI-EAS91_1_306UPAAXX:6:1:481:1687 -GCAGATTGCGATAAACGGTCACATTAAATTTAACCT ->HWI-EAS91_1_306UPAAXX:6:1:1112:1279 -TGTGCATATACCTGGTCTTTCGTATTCTGTCGTGAT ->HWI-EAS91_1_306UPAAXX:6:1:1099:1216 -TTAGAGCGCATGACAAGTAAAGGACGGTTGTCAGCG ->HWI-EAS91_1_306UPAAXX:6:1:221:1238 -GTATCCTTTCCTTTATCATCGGCAGACTTTTCACCT ->HWI-EAS91_1_306UPAAXX:6:1:1015:364 -GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG ->HWI-EAS91_1_306UPAAXX:6:1:735:1806 -TGTTATTAATATCAAGTTGGGGGAGCACATTGTAGC ->HWI-EAS91_1_306UPAAXX:6:1:320:411 -GCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAGTG ->HWI-EAS91_1_306UPAAXX:6:1:1273:1031 -TTAAGGATATTCGCGATGAGTATAATTACCCCAAAA ->HWI-EAS91_1_306UPAAXX:6:1:1456:1088 -AATAATCAGCGTGACATTCAGAAGGGTAATAAGAAC ->HWI-EAS91_1_306UPAAXX:6:1:1365:307 -GACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAG ->HWI-EAS91_1_306UPAAXX:6:1:478:252 -GATGCGGTTATCCATCTGCTTATTGAAGCCAAGCAT ->HWI-EAS91_1_306UPAAXX:6:1:915:1232 -TATTAATAACACTATAGACCACCGCCCCGAAGGGGC ->HWI-EAS91_1_306UPAAXX:6:1:680:1357 -TTCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGC ->HWI-EAS91_1_306UPAAXX:6:1:238:1279 -GCCGAAGCCCCTGCAATTAAAATTGTTGACCACCTA ->HWI-EAS91_1_306UPAAXX:6:1:1583:35 -GCAAATTAGCATAAGCAGCTTGCAGACCCATAATGT ->HWI-EAS91_1_306UPAAXX:6:1:502:283 -GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT ->HWI-EAS91_1_306UPAAXX:6:1:418:1730 -GAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGT ->HWI-EAS91_1_306UPAAXX:6:1:596:647 -GCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTA ->HWI-EAS91_1_306UPAAXX:6:1:92:1591 -GTTCATGAAGGATGGTGTTAATGCCACTCCTCTCCC ->HWI-EAS91_1_306UPAAXX:6:1:430:1938 -GCAGGACGCTTTTTCACGTTCTGGTTGGTTGTGTCC ->HWI-EAS91_1_306UPAAXX:6:1:212:527 -GGTATTGATAAAGCTGTTGCCGATACTTGTAACAAT ->HWI-EAS91_1_306UPAAXX:6:1:594:942 -GACGACATTAGAAATATCCTTTGCAGTAGCGCCAAT ->HWI-EAS91_1_306UPAAXX:6:1:169:1774 -GCCTTCCATGATGAGACAGGCCGTTTTAATTTTTAC ->HWI-EAS91_1_306UPAAXX:6:1:1090:210 -GGAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGC ->HWI-EAS91_1_306UPAAXX:6:1:589:96 -GGCGGCCCCATCAGGGTTAGGAACATTAGAGCCTTG ->HWI-EAS91_1_306UPAAXX:6:1:1477:1231 -TAGGAACATTAGAGCCTTGAATGGCAGATTTAATAC ->HWI-EAS91_1_306UPAAXX:6:1:707:1076 -TCTGACGTTCGTGATGAGTTTGTATCTTTTTCTTTG ->HWI-EAS91_1_306UPAAXX:6:1:749:1715 -GAACATAATAAGCAATGACGGCAGCAATAAACTCAA ->HWI-EAS91_1_306UPAAXX:6:1:1738:1884 -GCTCACCTTTAGCATCAACAGGCCACAACCAACCAG ->HWI-EAS91_1_306UPAAXX:6:1:1160:1088 -TCACATTTTGTTCATGGTAGAGATTCTCTTGTTGAC ->HWI-EAS91_1_306UPAAXX:6:1:517:119 -GCAAGGCTAATGATTCACACGCCGACTGCTATCAGT ->HWI-EAS91_1_306UPAAXX:6:1:1472:716 -TGGTAATGGTGGTTTTCTTCATTTCATTCAGTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:281:441 -GAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCT ->HWI-EAS91_1_306UPAAXX:6:1:1101:324 -AATACCATCAGCTTTACCGTCTTTCCAGAAATTGTT ->HWI-EAS91_1_306UPAAXX:6:1:1225:1494 -TTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAA ->HWI-EAS91_1_306UPAAXX:6:1:1509:1025 -TTCTTGCTGCCGAGGGTCGCAAGGCTATTGTTTCAC ->HWI-EAS91_1_306UPAAXX:6:1:592:510 -GATACCAATAAAATCCCTAAGCATTTGTTTCTGGTT ->HWI-EAS91_1_306UPAAXX:6:1:324:1729 -GAACAAAGAAACGCGGCACAGAATGTTTATAGGTCT ->HWI-EAS91_1_306UPAAXX:6:1:128:1925 -GGAACAACTCACTAAAAACCAAGCTGTCGCTACTTC ->HWI-EAS91_1_306UPAAXX:6:1:786:893 -TACGGGGAAGGACGTCAATAGTCACACAGTCCTTGC ->HWI-EAS91_1_306UPAAXX:6:1:248:955 -GCTACAATGTGCTCCCCCAACTTGATATTAATAACA ->HWI-EAS91_1_306UPAAXX:6:1:388:1127 -GATATTGGTCGTATGGTTCTTGCTGCCTAGTGTCTC ->HWI-EAS91_1_306UPAAXX:6:1:721:1156 -TCTGGTTGGTTGTGGCCTTTTTATGCTAAATGTTAG ->HWI-EAS91_1_306UPAAXX:6:1:1564:1468 -TTACTTTTTATGTCCCTCATCGTCACGTTTATGTTG ->HWI-EAS91_1_306UPAAXX:6:1:750:77 -GGCTCATTCTGATTCTGAACAGCTTCTTGGGAAGTA ->HWI-EAS91_1_306UPAAXX:6:1:405:487 -GTTGGATTAAGCACTCCGTGGACAGATTTGTCATTT ->HWI-EAS91_1_306UPAAXX:6:1:836:1204 -TTGCTTCTGCTCTTGCTTGTGGCGCCATGTCTAAAT ->HWI-EAS91_1_306UPAAXX:6:1:224:1548 -GCTGCCGTCATTGCTTATTATGTTCATCCCTTCAAC ->HWI-EAS91_1_306UPAAXX:6:1:931:1015 -TTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGT ->HWI-EAS91_1_306UPAAXX:6:1:329:579 -GTCCCTCATCGTCACGTTTATGGTGAACAGTGGATT ->HWI-EAS91_1_306UPAAXX:6:1:260:1145 -GCTTGCGTTTATGGTACGCTGGACTTTTTGTGATAC ->HWI-EAS91_1_306UPAAXX:6:1:1523:1253 -TTGGTAAAATACTGACCAGCCGTTTGAGCTTGAGTA ->HWI-EAS91_1_306UPAAXX:6:1:326:1271 -GACCACTCGCGATTCAATCATGACTTCGTGATAAAT ->HWI-EAS91_1_306UPAAXX:6:1:213:622 -GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA ->HWI-EAS91_1_306UPAAXX:6:1:274:712 -GCGGTCAAAAAGCCGCCTCCGGTGGCATTCAAGGTG ->HWI-EAS91_1_306UPAAXX:6:1:1549:627 -TATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAATGT ->HWI-EAS91_1_306UPAAXX:6:1:1714:737 -TCTTTCGTATTCTGGCGTGAAGTCGCCGACTGAATG ->HWI-EAS91_1_306UPAAXX:6:1:760:1217 -TACACGCAGGACGCTTTTTCACGTTCTGGTTGGTTT ->HWI-EAS91_1_306UPAAXX:6:1:174:768 -GTTGGCTGACGACCGATTAGAGGCGTTTTTTTATAT ->HWI-EAS91_1_306UPAAXX:6:1:172:1412 -GGTCGGCAGATTGCGATAAACGTTCACATTAAATTT ->HWI-EAS91_1_306UPAAXX:6:1:1393:869 -TTCATCCCGTCAACATTCAAACGGCCTGTCTCATCT ->HWI-EAS91_1_306UPAAXX:6:1:301:481 -GTTATAGATATTCAAATAACCCTGAAACAAATGCTT ->HWI-EAS91_1_306UPAAXX:6:1:648:1093 -TAACGCTGCATGAAGTAATCACGTTCTTGGTCAGTT ->HWI-EAS91_1_306UPAAXX:6:1:1233:591 -TTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCT ->HWI-EAS91_1_306UPAAXX:6:1:540:1415 -TTATTAAAGAGATTATTTTTCTCCAGCCACTTATGT ->HWI-EAS91_1_306UPAAXX:6:1:151:1792 -GCAAGCTGCTTATGCTAATTTGCATACTGACCAAGA ->HWI-EAS91_1_306UPAAXX:6:1:748:1378 -TGGATTACTATCTGAGTCCGATGCTGTTCAACCACT ->HWI-EAS91_1_306UPAAXX:6:1:1526:1479 -TGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGCC ->HWI-EAS91_1_306UPAAXX:6:1:985:1093 -TAACCGTCTTCTCGTTCTCTAAAAACCATTTTTCTT ->HWI-EAS91_1_306UPAAXX:6:1:480:1378 -TCAACCTCAGCACTAACCTTGCGAGTCATTTCTTTG ->HWI-EAS91_1_306UPAAXX:6:1:903:753 -TGTGGCCTGTTGATGCTAAAGGTGAGCCGCTTAAAG ->HWI-EAS91_1_306UPAAXX:6:1:1697:1737 -GGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGT ->HWI-EAS91_1_306UPAAXX:6:1:803:1037 -TGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCTACT ->HWI-EAS91_1_306UPAAXX:6:1:1727:1244 -TTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCT ->HWI-EAS91_1_306UPAAXX:6:1:253:1162 -GCATTTAGTAGCGGTAAAGTTTGACCAAACCATTAT ->HWI-EAS91_1_306UPAAXX:6:1:216:856 -GTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCT ->HWI-EAS91_1_306UPAAXX:6:1:825:886 -TCCCACAAAGTCCAGCGTACCATAAACGCAAGCCTC ->HWI-EAS91_1_306UPAAXX:6:1:1699:962 -TGATTTCGATTTTCTGACGAGTAACAAAGTTTGGAT ->HWI-EAS91_1_306UPAAXX:6:1:1210:625 -TCAGATAGTAATCCACGCTCTTTTAAAATGTCAACA ->HWI-EAS91_1_306UPAAXX:6:1:538:616 -TAAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGT ->HWI-EAS91_1_306UPAAXX:6:1:184:1849 -GCTCACCTTTAGCATCAACAGGCCACAACCAACCAG ->HWI-EAS91_1_306UPAAXX:6:1:1636:1103 -TATCTGACTTTTTGTTAACGTATTTAGCCACATAGA ->HWI-EAS91_1_306UPAAXX:6:1:605:223 -GGTTATTTGAATATCTATAACAACTATTTTAAATCG ->HWI-EAS91_1_306UPAAXX:6:1:256:1052 -GGTAAAGGACTTCTTGAAGGTACGTTGCAGTCTGGC ->HWI-EAS91_1_306UPAAXX:6:1:300:1515 -GCCATGATGGTGGTTATTATACCGTCAAGGACTTTT ->HWI-EAS91_1_306UPAAXX:6:1:1684:1320 -TGCTTGGCTTCCATAAGCAGATGGATAACCGCATCA ->HWI-EAS91_1_306UPAAXX:6:1:1186:895 -TCAGATGGATACATCTGTCAACGCCGCTAATCAGGT ->HWI-EAS91_1_306UPAAXX:6:1:1463:754 -TCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTT ->HWI-EAS91_1_306UPAAXX:6:1:808:1053 -TGTCCACGGAGTGCTTAATCCAACTTACCAAGCTGG ->HWI-EAS91_1_306UPAAXX:6:1:960:1218 -TTTCTAATGTCGTCACTGATGCTGCTTCTGTTGTTT ->HWI-EAS91_1_306UPAAXX:6:1:521:1646 -GGAAAACGAACAAGCGCAAGAGTAAACATAGTGCCA ->HWI-EAS91_1_306UPAAXX:6:1:289:1885 -GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG ->HWI-EAS91_1_306UPAAXX:6:1:471:170 -GGTCAGTTCCATCAACATCATAGCCAGATGCCCAGA ->HWI-EAS91_1_306UPAAXX:6:1:828:754 -TTTGCGTGACTATTTTCGTGATATTGTTCGTATGGT ->HWI-EAS91_1_306UPAAXX:6:1:924:1679 -TTTAATGTGACCGTTTATCGCAATCTGCCGACCACT ->HWI-EAS91_1_306UPAAXX:6:1:837:901 -TGCATTTTAGTAAGCTCTTTTTGATTCTCAAATCCG ->HWI-EAS91_1_306UPAAXX:6:1:543:16 -GCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTC ->HWI-EAS91_1_306UPAAXX:6:1:1482:578 -TCTTTAGCTCCTAGACCTTTAGCAGCAAGGTCCATA ->HWI-EAS91_1_306UPAAXX:6:1:1254:1668 -TTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCT ->HWI-EAS91_1_306UPAAXX:6:1:1402:898 -TCATGAGTCAAGTTACTGAACAATCCGTACGTTTCC ->HWI-EAS91_1_306UPAAXX:6:1:764:1534 -TTATACCGTCAAGGACTGTGTGACTATTGACGTCCT ->HWI-EAS91_1_306UPAAXX:6:1:681:1079 -TGGCGAATAAGTACGCGTTCTTGCAAATCACCAGAA ->HWI-EAS91_1_306UPAAXX:6:1:672:1350 -TTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTT ->HWI-EAS91_1_306UPAAXX:6:1:1266:493 -TGACCAGCCGTTTGAGCTTGAGTAAGCATTTGGCGC ->HWI-EAS91_1_306UPAAXX:6:1:118:238 -GACGGTATAATAACCACCATCATGGCGACCATTCAA ->HWI-EAS91_1_306UPAAXX:6:1:699:433 -TTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTC ->HWI-EAS91_1_306UPAAXX:6:1:708:1387 -TGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTAC ->HWI-EAS91_1_306UPAAXX:6:1:498:1085 -TTATGATAATCCCAATGCTTTGCGTGACTATTTTCT ->HWI-EAS91_1_306UPAAXX:6:1:1101:1301 -TCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAAT ->HWI-EAS91_1_306UPAAXX:6:1:261:213 -GAATGGTCGCCATGATGGTGGTTATTATACCGTCAC ->HWI-EAS91_1_306UPAAXX:6:1:1287:1267 -TGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGT ->HWI-EAS91_1_306UPAAXX:6:1:744:331 -TTAATGGATGAATTGGCACAATGCTACAATGTGCTC ->HWI-EAS91_1_306UPAAXX:6:1:614:814 -TGTCAGCGTCATAAGAGGTTTTACCTCCAAATGAAG ->HWI-EAS91_1_306UPAAXX:6:1:1362:1063 -TAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAG ->HWI-EAS91_1_306UPAAXX:6:1:1238:1508 -TCAACTAACGATTCTGTCAAAAACTGACGCGTTGGT ->HWI-EAS91_1_306UPAAXX:6:1:904:1130 -TTATCGCAATCTGCCGACCACTCGCGATTCAATCAT ->HWI-EAS91_1_306UPAAXX:6:1:465:216 -GACCATGCCGCTTTTCTTGGCACGATTAACCCTTAT ->HWI-EAS91_1_306UPAAXX:6:1:844:628 -TAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGC ->HWI-EAS91_1_306UPAAXX:6:1:684:1444 -TATCCCACAAAGTCCAGCGTACCATAAACGCAAGCC ->HWI-EAS91_1_306UPAAXX:6:1:515:1373 -TAAGTTCATGAAGGATGGTGTTAATGCCACTCCTCT ->HWI-EAS91_1_306UPAAXX:6:1:764:1667 -TTGAGTTCGATAATGGTGATATGTATGTTGACGTCC ->HWI-EAS91_1_306UPAAXX:6:1:1722:598 -TGAGTTTATTGCTGCCGTCATTGCTTATTATGTTCT ->HWI-EAS91_1_306UPAAXX:6:1:670:1188 -TTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGT ->HWI-EAS91_1_306UPAAXX:6:1:1682:1705 -TAGCCACATAGAAACCAACAGCCATATAACTGGTAG ->HWI-EAS91_1_306UPAAXX:6:1:1008:1616 -TCCTTTACTTGTCATGCGCTCTAATCTCTGTGCATC ->HWI-EAS91_1_306UPAAXX:6:1:490:1220 -TAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCT ->HWI-EAS91_1_306UPAAXX:6:1:891:1437 -TAATGGTGATATGTATGTTTACGTCCATAAGGCTGT ->HWI-EAS91_1_306UPAAXX:6:1:1310:321 -TCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGT ->HWI-EAS91_1_306UPAAXX:6:1:827:1597 -TGCGAGGTACTAAAGGCAAGCGTAAAGGCGCTCGTC ->HWI-EAS91_1_306UPAAXX:6:1:1062:1158 -TAGAGTCAATAGCAAGGCCACGACGCAATGGAGAAA ->HWI-EAS91_1_306UPAAXX:6:1:1419:208 -TGGCGCATAATCTCGGAAACCTGCTGTTGCTTGGAA ->HWI-EAS91_1_306UPAAXX:6:1:691:1018 -AAATATCAACCACACCAGAAGCAGCATCAGTGACGA ->HWI-EAS91_1_306UPAAXX:6:1:374:113 -GATAAAGCTGTTGCCGATACTTGGAACAATTTCTGT ->HWI-EAS91_1_306UPAAXX:6:1:1720:784 -TGAGGATAAATTATGTCTAATATTCAAACTGGCGCC ->HWI-EAS91_1_306UPAAXX:6:1:1424:1394 -ATAAAAATGATTGGCGTATCCAACCTGCAGAGTTTT ->HWI-EAS91_1_306UPAAXX:6:1:1063:1760 -TAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCT ->HWI-EAS91_1_306UPAAXX:6:1:1235:729 -TTTTTATGTCCCTCATCGTCACGTTTATGGTGAACA ->HWI-EAS91_1_306UPAAXX:6:1:167:1507 -TAGTGTTATTAATATCAAGTTTTTGGAGCACATTGT ->HWI-EAS91_1_306UPAAXX:6:1:717:1569 -TCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGT ->HWI-EAS91_1_306UPAAXX:6:1:610:765 -TTCAGCGCCTTCCATGATGAGACAGGCCGTTTGAAT ->HWI-EAS91_1_306UPAAXX:6:1:663:380 -TAAACATTCTGTGCCGCGTTTCTTTGTTCCTTATCT ->HWI-EAS91_1_306UPAAXX:6:1:790:1358 -TTATCACCTTATTGAAGGCTTATCATTCATTTAGGT ->HWI-EAS91_1_306UPAAXX:6:1:965:1633 -TAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCT ->HWI-EAS91_1_306UPAAXX:6:1:673:319 -TTCTTGCAAATCACCAGAAGGCGGTTCCTGAATGAT ->HWI-EAS91_1_306UPAAXX:6:1:684:371 -TAGCGGTAAAGTTAGACCAAACCATGAAACCAACAT ->HWI-EAS91_1_306UPAAXX:6:1:1147:1444 -ATCTGTCCACGGAGTGCTTAATCCAACTTACCAAGC ->HWI-EAS91_1_306UPAAXX:6:1:983:678 -ATACCTGGTCTTTCGTATTCTGGCGTGAAGTCGCCG ->HWI-EAS91_1_306UPAAXX:6:1:1608:1119 -TCACGCGGCGGCAAGTTGCCATACAAAACAGGGTCG ->HWI-EAS91_1_306UPAAXX:6:1:1048:1193 -TAGTCAGGTTAAATTTAATGTGACCGTTTATCGCAT ->HWI-EAS91_1_306UPAAXX:6:1:1265:1429 -ATATTTTTCATGGTATTGATAAAGCTGTTGCCGATT ->HWI-EAS91_1_306UPAAXX:6:1:1607:1677 -TGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGAC ->HWI-EAS91_1_306UPAAXX:6:1:1087:1421 -ACGAACGTCAGAAGCAGCCTTATGGCCGTCAACATC ->HWI-EAS91_1_306UPAAXX:6:1:324:490 -GCACCAAACATAAATCACCTCACTTAAGTGGCTGGG ->HWI-EAS91_1_306UPAAXX:6:1:1596:614 -TTACCGCTACTAAATGCCGCGGATTGGTTTCGCTGT ->HWI-EAS91_1_306UPAAXX:6:1:343:83 -GTTACGCAGTTTTGCCGCAAGCTGGCTGCTGTACGC ->HWI-EAS91_1_306UPAAXX:6:1:203:667 -GCATGAATGTGCTTAATAGAGGCCAAGGCGGTCTAG ->HWI-EAS91_1_306UPAAXX:6:1:34:480 -GGCAAGTTGCCATACAAAACAGGGTCGCCAGCAATT ->HWI-EAS91_1_306UPAAXX:6:1:606:1743 -TAGCGACAGCTTGGTTTTTAGTGAGTTGTTCCATTC ->HWI-EAS91_1_306UPAAXX:6:1:254:1391 -TATAATTACCCCAAAAAGAAAGGTATTAAGGATGAG ->HWI-EAS91_1_306UPAAXX:6:1:1568:1750 -TAACCAGTAGTGTTAACAGTCGGGAGAGGAGTGGCT ->HWI-EAS91_1_306UPAAXX:6:1:1538:869 -TACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCA ->HWI-EAS91_1_306UPAAXX:6:1:255:38 -GTCAGGATTGACACCCTCCCAATTGTATGTTTTCAT ->HWI-EAS91_1_306UPAAXX:6:1:1543:1555 -TAAAACGCCTCTAATCGGTCGTCAGCCAACGTGAGG ->HWI-EAS91_1_306UPAAXX:6:1:1365:733 -AGAATCAGCGGTATGGCTCTTCTCCTTTTTTCGCTT ->HWI-EAS91_1_306UPAAXX:6:1:1604:943 -TACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCT ->HWI-EAS91_1_306UPAAXX:6:1:1574:1632 -TCAGTATGCAAATTAGCATAAGCAGCTTGCAGACCC ->HWI-EAS91_1_306UPAAXX:6:1:565:1799 -TCTTGGTCAGTATGCAAATTAGCATAAGCAGCTTGC ->HWI-EAS91_1_306UPAAXX:6:1:1004:380 -TATTGACTCTACTGTAGACATTTTTACTTTTTATTT ->HWI-EAS91_1_306UPAAXX:6:1:1345:965 -ATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGT ->HWI-EAS91_1_306UPAAXX:6:1:1704:756 -TGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGG ->HWI-EAS91_1_306UPAAXX:6:1:310:1346 -TATAACGTTGACGATGTAGCTTTAGTTTTCTTTAAA ->HWI-EAS91_1_306UPAAXX:6:1:900:1858 -TTTACCGCTTCGGCGTTATAACCTCACACTCAATCT ->HWI-EAS91_1_306UPAAXX:6:1:1250:1741 -TAAATCCAAAACGGCAGAAGCCTGAATGAGCTTAAT ->HWI-EAS91_1_306UPAAXX:6:1:1170:1317 -TCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTC ->HWI-EAS91_1_306UPAAXX:6:1:149:1896 -GCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATC ->HWI-EAS91_1_306UPAAXX:6:1:1504:494 -TGTCTACAGTAGAGTCAATAGCAAGGCCACGACGCC ->HWI-EAS91_1_306UPAAXX:6:1:395:256 -GTCCATATCTGACTTTTTGTTAACGTATTTATCCAC ->HWI-EAS91_1_306UPAAXX:6:1:1110:1109 -ACCGCTTCGGCGTTATAACCTCACACTCAATCTTTT ->HWI-EAS91_1_306UPAAXX:6:1:895:649 -TTCTGCACGTAATTTTTGACGCACGTTTTCTTCTGC ->HWI-EAS91_1_306UPAAXX:6:1:827:1378 -TGCAAGCTGCTTATGCTAATTTGCATACTGACCAAG ->HWI-EAS91_1_306UPAAXX:6:1:1051:1587 -TTTGACACTCTCACGTTGGCTGACGACCGATTAGAG ->HWI-EAS91_1_306UPAAXX:6:1:1656:1549 -AACCTGCTGTTGCTTGGAAAGATTGGTGTTTTCCAT ->HWI-EAS91_1_306UPAAXX:6:1:366:150 -GGTCAGTAGCAATCCAAACTTTGTTACTCGTCAGAA ->HWI-EAS91_1_306UPAAXX:6:1:955:1792 -ATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTA ->HWI-EAS91_1_306UPAAXX:6:1:1340:1403 -ATAAAATGCACCGCATGGAAATGAAGACGGCCATTA ->HWI-EAS91_1_306UPAAXX:6:1:1693:1017 -TGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGT ->HWI-EAS91_1_306UPAAXX:6:1:1099:1572 -AATTTTTACCGCTTCGGCGTTATAACCTCACACTCA ->HWI-EAS91_1_306UPAAXX:6:1:218:1148 -TATGCAAATTAGCATAAGCAGCTTGCAGACCCATAT ->HWI-EAS91_1_306UPAAXX:6:1:403:614 -TGGTGCTGATGCTTCCTCTGCTGGTATGGTTTACGC ->HWI-EAS91_1_306UPAAXX:6:1:1651:646 -TCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGC ->HWI-EAS91_1_306UPAAXX:6:1:1566:499 -TGCGGTGCATTTTATGCGGACACTTCCTACAGGTAG ->HWI-EAS91_1_306UPAAXX:6:1:825:951 -ACAGGCCGTTTGAATGTTTACGGGGTGTACATAATA ->HWI-EAS91_1_306UPAAXX:6:1:1745:1865 -TTAACTTCTGCGTCATGGAAGCGATAAAACTCTGCG ->HWI-EAS91_1_306UPAAXX:6:1:973:1992 -TAGTAATTCCTGCTTTATCAAGATAATTTTTCGACT ->HWI-EAS91_1_306UPAAXX:6:1:171:1653 -TAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGT ->HWI-EAS91_1_306UPAAXX:6:1:397:363 -TGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGT ->HWI-EAS91_1_306UPAAXX:6:1:1336:1155 -ATATGTATGTTGACGGCCATAAGGCTGCTTCTGACG ->HWI-EAS91_1_306UPAAXX:6:1:685:629 -AGTATGCAAATTAGCATAAGCAGCTTGCAGACCCAT ->HWI-EAS91_1_306UPAAXX:6:1:1409:510 -ACATAATAAGCAATGACGGCAGCAATAAACTCAACA ->HWI-EAS91_1_306UPAAXX:6:1:1631:998 -AACCATCAGCATGAGCCTGTCGCATTGCATTCATCC ->HWI-EAS91_1_306UPAAXX:6:1:260:1698 -TTATTATGTTCATCCCGTCAACATTCAAACTGCCTT ->HWI-EAS91_1_306UPAAXX:6:1:578:971 -TTAACGCTACTAAATTCCGCGGATTGGTTTCGTTGT ->HWI-EAS91_1_306UPAAXX:6:1:1613:642 -ATAGAAATTTCACGCGGCGGCAAGTTGCCATACAAA ->HWI-EAS91_1_306UPAAXX:6:1:237:650 -GACGGTATAATAACCACCATCATGGCGACCATTCAA ->HWI-EAS91_1_306UPAAXX:6:1:1100:1875 -TTATGGTTCGTTCTTATTACCCTTCTGAATGTCACG ->HWI-EAS91_1_306UPAAXX:6:1:352:32 -GTACCATAAACGCAAGCCTCAACGCAGCGACGAGCC ->HWI-EAS91_1_306UPAAXX:6:1:443:229 -GCAGTAGGCGGAAAACGAACAAGCGCAAGAGTAAAC ->HWI-EAS91_1_306UPAAXX:6:1:1131:731 -AGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCT ->HWI-EAS91_1_306UPAAXX:6:1:133:1089 -AAGGTTAGTGCTGAGGTTGACTTAGTTCATCATCAA ->HWI-EAS91_1_306UPAAXX:6:1:65:1307 -TGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTT ->HWI-EAS91_1_306UPAAXX:6:1:905:1493 -TCAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTT ->HWI-EAS91_1_306UPAAXX:6:1:733:540 -TGCCGCGGATTGGTTTCGCTGAATCAGGTTATTAAT ->HWI-EAS91_1_306UPAAXX:6:1:161:1707 -TAATGTCGTCACTGATGCTGCTTCTGTTGTTGTTTT ->HWI-EAS91_1_306UPAAXX:6:1:380:1861 -TCTGGGCATCTGGCTATGATGTTGATGGAACTGACC ->HWI-EAS91_1_306UPAAXX:6:1:1761:566 -TATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAT ->HWI-EAS91_1_306UPAAXX:6:1:1486:651 -TGGCGGTATTTCTTCTTCTCTTTCTTGTTGCGCCCT ->HWI-EAS91_1_306UPAAXX:6:1:508:1380 -TCCATCAACATCATAGCCAGATGCCCAGAGATTAGA ->HWI-EAS91_1_306UPAAXX:6:1:1763:855 -TGTTTTGTATGGCAACTTGCCGCCGCGTGAAATTTC ->HWI-EAS91_1_306UPAAXX:6:1:1553:553 -TAATTGCAGGGGCTTCGGCCCCTTACTTGAGGATAA ->HWI-EAS91_1_306UPAAXX:6:1:1424:507 -TCCACTGCAACAACTGAACGGACTGGAAACACTGGT ->HWI-EAS91_1_306UPAAXX:6:1:988:135 -TAAGCTGGTTCTCACTTCTGTTACTCCAGCTTCTTC ->HWI-EAS91_1_306UPAAXX:6:1:810:1918 -TTTTCATCCCGAAGTTGCGGCTCATTCTGATTCTGT ->HWI-EAS91_1_306UPAAXX:6:1:588:559 -TCTGGTTGAACGGCGTCGCGTCGTAACCCAGCTTGG ->HWI-EAS91_1_306UPAAXX:6:1:1264:1214 -ATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCAC ->HWI-EAS91_1_306UPAAXX:6:1:1000:1475 -TCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTG ->HWI-EAS91_1_306UPAAXX:6:1:1389:160 -TTATTCGCCACCATGATTATGACCAGTGTTTCCAGT ->HWI-EAS91_1_306UPAAXX:6:1:422:1296 -TTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGT ->HWI-EAS91_1_306UPAAXX:6:1:1273:856 -TAGCCATAGCACCAGAAACAAAACTAGGGGCGGCCT ->HWI-EAS91_1_306UPAAXX:6:1:450:969 -TGTTTTCCATAATAGACGCAACGCGAGCAGTAGACT ->HWI-EAS91_1_306UPAAXX:6:1:1202:828 -ATCGTCAACGTTATATTTTGATAGTTTGACGTTTAT ->HWI-EAS91_1_306UPAAXX:6:1:1721:1800 -GGGTTAGGGACATTAGAGCCTTGACTGACTGAGTTT ->HWI-EAS91_1_306UPAAXX:6:1:228:2019 -TTGAGTAAGCATTTGGCGCATAATCTCGGAAACCTG ->HWI-EAS91_1_306UPAAXX:6:1:1579:1214 -ACGTTTGGTCAGTTCCATCAACATCATAGCCAGATG ->HWI-EAS91_1_306UPAAXX:6:1:429:1055 -TTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCTTT ->HWI-EAS91_1_306UPAAXX:6:1:1359:1689 -AAGAGCAGAAGCAATACCGCCAGCAATAGCACCAAA ->HWI-EAS91_1_306UPAAXX:6:1:1474:1056 -TCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGAC ->HWI-EAS91_1_306UPAAXX:6:1:105:1818 -TTGGGGATTGAGAAAGAGTAGAAATGCCACAAGCCT ->HWI-EAS91_1_306UPAAXX:6:1:208:1538 -TAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA ->HWI-EAS91_1_306UPAAXX:6:1:1361:1623 -AATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTA ->HWI-EAS91_1_306UPAAXX:6:1:595:1670 -TGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACA ->HWI-EAS91_1_306UPAAXX:6:1:6:1885 -TCTAATGTCGTCACTGATGCTGCTTCTGGTGTGTTT ->HWI-EAS91_1_306UPAAXX:6:1:706:1085 -TGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTG ->HWI-EAS91_1_306UPAAXX:6:1:1307:825 -AGCGGTAAAGTTAGACCAAACCATGAAACCAACATA ->HWI-EAS91_1_306UPAAXX:6:1:762:802 -TGGCATTAACACCATCCTTCATGAACTTAATCCACT ->HWI-EAS91_1_306UPAAXX:6:1:1657:506 -TTGCGACCCTCGGCAGCAAGAACCATACGACCAATT ->HWI-EAS91_1_306UPAAXX:6:1:184:811 -TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC ->HWI-EAS91_1_306UPAAXX:6:1:1469:1718 -TGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCTTT ->HWI-EAS91_1_306UPAAXX:6:1:815:1640 -TGGCGGCGATTGCGTACCCGACGACCCAAATTAGGG ->HWI-EAS91_1_306UPAAXX:6:1:1580:1388 -AAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTG ->HWI-EAS91_1_306UPAAXX:6:1:1617:1554 -TACGGGGAAGGACGTCAATAGTCACACAGTCCTTGA ->HWI-EAS91_1_306UPAAXX:6:1:1544:431 -TGATGCTAAAGGTGAGCCGCTTAAAGCTACCAGTTA ->HWI-EAS91_1_306UPAAXX:6:1:1604:1541 -TCAGTGACGACATTAGAAATATCCTTTGCAGTAGCG ->HWI-EAS91_1_306UPAAXX:6:1:1485:741 -ATCAAACGCTGAATAGTAAAGCCTCTACGCGATTTC ->HWI-EAS91_1_306UPAAXX:6:1:1226:393 -TGCCACAAGCCTCAATAGCAGGTTTAAGAGCCTCGA ->HWI-EAS91_1_306UPAAXX:6:1:1506:973 -ATTAGGGTCAACGCTACCTGTAGGAAGTGTCCGCAT ->HWI-EAS91_1_306UPAAXX:6:1:890:1838 -TGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGC ->HWI-EAS91_1_306UPAAXX:6:1:453:1527 -TAAGAGGGCGTTCAGCAGCCAGCTTGCGGCAAAACT ->HWI-EAS91_1_306UPAAXX:6:1:1056:570 -ACATTGTAGCATTGTGCCAATTCATCCATTAACTTC ->HWI-EAS91_1_306UPAAXX:6:1:1736:74 -TATCCGAAAGTGTTAACTTCTGCGTCATGGAAGCGT ->HWI-EAS91_1_306UPAAXX:6:1:169:1896 -GTATGCAAATTAGCATAAGCAGCTTGCAGACCCATA ->HWI-EAS91_1_306UPAAXX:6:1:259:949 -TGAGGATAAATTATGTCTAATATTCAAACTTGCTCC ->HWI-EAS91_1_306UPAAXX:6:1:1205:893 -ATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCT ->HWI-EAS91_1_306UPAAXX:6:1:732:1335 -TACTCGTGATTATCTTGCTGCTGCATTTCCTGAGCT ->HWI-EAS91_1_306UPAAXX:6:1:667:664 -TCTGAGTCCGATGCTGTTCAACCACTAATAGGTAAG ->HWI-EAS91_1_306UPAAXX:6:1:535:587 -TTAGAGGCGTTTTATGATAATCCCAATGCTTTGCGT ->HWI-EAS91_1_306UPAAXX:6:1:412:446 -GTGTGGTTGATATTTTTCATGGTATTGATAAAGCTT ->HWI-EAS91_1_306UPAAXX:6:1:507:1599 -TTGCTGGCGGTTTTTCTTTTTTTTTTTTTTTTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:575:1818 -TAAAATGCACCGCATGGAAATGAAGACGGCCATTAG ->HWI-EAS91_1_306UPAAXX:6:1:1568:1428 -ACCAGTTATATGGCTGGTTGTTTTTTTTTTTTTTTT ->HWI-EAS91_1_306UPAAXX:6:1:1417:982 -AACAAGAGAATCTCTACCATGAACAAAATGTGACTC ->HWI-EAS91_1_306UPAAXX:6:1:280:1340 -GGCCAAACCAGTGGCGATGGCCGCGCTGGAGGTTTT ->HWI-EAS91_1_306UPAAXX:6:1:966:144 -TACTAAATGCCGCGGATTGGTTTCGCTGAATCAGGT ->HWI-EAS91_1_306UPAAXX:6:1:1391:1987 -TAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGT ->HWI-EAS91_1_306UPAAXX:6:1:1280:278 -ATGGAAATGAAGACGGCCATTAGCTGTACCATACTC ->HWI-EAS91_1_306UPAAXX:6:1:631:858 -TGATATTGGTCGTATGGTTCTTGCTTCCGTGGGTCT ->HWI-EAS91_1_306UPAAXX:6:1:518:573 -TTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGT ->HWI-EAS91_1_306UPAAXX:6:1:54:981 -TTGACATTTTAAAAGAGCGTGGATTACTATCTGATT ->HWI-EAS91_1_306UPAAXX:6:1:218:1165 -TATTGACTCTACTGTAGACATTTTTACTTTTTATTT ->HWI-EAS91_1_306UPAAXX:6:1:1727:1530 -TCAACGCAGCGACGAGCACGAGAGCGGTCAGTAGCA ->HWI-EAS91_1_306UPAAXX:6:1:519:657 -TGAACAGCATCGGACTCAGATAGTAATCCACGCTCT ->HWI-EAS91_1_306UPAAXX:6:1:939:967 -ATACCGTCAAGGACTGTGTGACTATTGACGTCCTTC ->HWI-EAS91_1_306UPAAXX:6:1:299:1060 -TATAACTGGTAGCTTTAAGCGGCTCACCTTTAGCAT ->HWI-EAS91_1_306UPAAXX:6:1:438:665 -TAATTCGTAAACAAGCAGTAGTAATTCCTGCTTTAT ->HWI-EAS91_1_306UPAAXX:6:1:1303:1971 -AGCATTGTGCCAATTCATCCATTAACTTCTCAGTAA ->HWI-EAS91_1_306UPAAXX:6:1:214:1264 -TCAGCACCAACAGAAACAACCTGATTAGCGGCGTTG ->HWI-EAS91_1_306UPAAXX:6:1:1454:1423 -AACGGAAAACATCCTTCATAGAAATTTCACGCGGCG ->HWI-EAS91_1_306UPAAXX:6:1:1633:340 -TTCCATAATAGACGCAACGCGAGCAGTAGACTCCTT ->HWI-EAS91_1_306UPAAXX:6:1:671:1196 -ATACGAAAAGACAGAATCTCTTCCAAGAGCTTGATG diff -r 8d149264b777 -r efdb6fb5de34 test-data/b1.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/b1.fasta Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,1000 @@ +>HWI-EAS91_1_306UPAAXX:6:1:1503:1160 +GGTGGTCTATAGTGTTATTAATATCAAGTTGGGGGG +>HWI-EAS91_1_306UPAAXX:6:1:1564:1179 +GCGAGCAGTAGACTCCTTCTGTTGATAAGCAAGCAT +>HWI-EAS91_1_306UPAAXX:6:1:1704:1082 +GATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTC +>HWI-EAS91_1_306UPAAXX:6:1:1588:1797 +GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT +>HWI-EAS91_1_306UPAAXX:6:1:1304:1526 +GTAGTTGAAATGGTAATAAGACGACCAATCTGACCT +>HWI-EAS91_1_306UPAAXX:6:1:1490:1582 +GTCGTGTTCAACAGACCTATAAACATTCTGTGCCGC +>HWI-EAS91_1_306UPAAXX:6:1:1356:1339 +GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC +>HWI-EAS91_1_306UPAAXX:6:1:1311:853 +GGTTGGTTTATCGTTTTTGACACTCTCACGTTGTCT +>HWI-EAS91_1_306UPAAXX:6:1:1257:1552 +GTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTC +>HWI-EAS91_1_306UPAAXX:6:1:1486:1402 +GTTACTGAGAAGTTAATGGATGAATTGGCACAATGC +>HWI-EAS91_1_306UPAAXX:6:1:1028:1081 +GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT +>HWI-EAS91_1_306UPAAXX:6:1:1167:752 +GGTTTTCTTCATTGCATTCAGATGGATACATCTGTC +>HWI-EAS91_1_306UPAAXX:6:1:1507:1113 +GTCAACGTTATATTTTGATAGTTTGACGGTTAATTC +>HWI-EAS91_1_306UPAAXX:6:1:1654:1311 +GGATGAAAATGCTCACAATGACAAATCTGTCCACGG +>HWI-EAS91_1_306UPAAXX:6:1:1386:1060 +GTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTT +>HWI-EAS91_1_306UPAAXX:6:1:1070:1356 +GGTTACAGTATGCCCATCGCAGTTCGCTACACGCAG +>HWI-EAS91_1_306UPAAXX:6:1:787:1032 +GCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCA +>HWI-EAS91_1_306UPAAXX:6:1:834:1017 +GCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGT +>HWI-EAS91_1_306UPAAXX:6:1:1703:1155 +GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT +>HWI-EAS91_1_306UPAAXX:6:1:1406:593 +GTTGAGTTCGATAATGGTGATATGTATGTTTACGGC +>HWI-EAS91_1_306UPAAXX:6:1:1411:886 +GTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCAT +>HWI-EAS91_1_306UPAAXX:6:1:923:972 +GCATGACAAGTAAAGGACGGTTGTCAGCGTCATAAG +>HWI-EAS91_1_306UPAAXX:6:1:1279:1004 +GCCATAGCACCAGAAACAAAACTAGGGGCGGCCTCT +>HWI-EAS91_1_306UPAAXX:6:1:1070:840 +GGTTGTCAGCGTCATAAGAGGTTTTACCTCCAAATG +>HWI-EAS91_1_306UPAAXX:6:1:1595:1040 +GTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGT +>HWI-EAS91_1_306UPAAXX:6:1:1002:559 +GAGATTGCCGAGATGCAAAATGAGACTCAAAAAGAG +>HWI-EAS91_1_306UPAAXX:6:1:999:974 +GTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGC +>HWI-EAS91_1_306UPAAXX:6:1:896:982 +GTGGCTGGAGACAAATAATCTCTTTAATAACCTTAT +>HWI-EAS91_1_306UPAAXX:6:1:1366:741 +GTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGC +>HWI-EAS91_1_306UPAAXX:6:1:749:1469 +GTTTATGGTGAACAGTGGATTAAGTTCATGAAGGAT +>HWI-EAS91_1_306UPAAXX:6:1:1010:592 +GAGTTTATTGCTGCCGTCATTGCTTATTATGTTCAT +>HWI-EAS91_1_306UPAAXX:6:1:1393:650 +GTGACTCATATCTAAACCAGTCCTTGACGAACGTGC +>HWI-EAS91_1_306UPAAXX:6:1:1238:1731 +GAGAAATAAAAGTCTGAAACATGATTAAACTCCTAA +>HWI-EAS91_1_306UPAAXX:6:1:1629:908 +GATGCGGTTATCCATCTGCTTATGGAAGCCAAGCAT +>HWI-EAS91_1_306UPAAXX:6:1:1560:849 +GCTGTCGCTACTTCCCAAGAAGCTGTTCAGAATCAG +>HWI-EAS91_1_306UPAAXX:6:1:1029:783 +GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT +>HWI-EAS91_1_306UPAAXX:6:1:1152:1324 +GACAATCAGAAAGAGATTGCCGAGATGCAAAATGAG +>HWI-EAS91_1_306UPAAXX:6:1:1614:2042 +GAAATGCCACAAGCCTCAATAGCAGGTTTAAGAGCC +>HWI-EAS91_1_306UPAAXX:6:1:1398:439 +GATGGTTGGTTTATCGTTTTTGACACTCTCACGTTG +>HWI-EAS91_1_306UPAAXX:6:1:955:616 +GACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGC +>HWI-EAS91_1_306UPAAXX:6:1:1672:753 +GAATGCCAGCAATCTCTTTTTGAGTCTCATTTTGCT +>HWI-EAS91_1_306UPAAXX:6:1:1195:1293 +GCAATGCGACAGGCTCATGCTGATGGTTGGTTTATC +>HWI-EAS91_1_306UPAAXX:6:1:1074:755 +GCAAGAGTAAACATAGTGCCATGCTCAGGAACAAAG +>HWI-EAS91_1_306UPAAXX:6:1:984:499 +GACTTAGTTCATCAGCAAACGCAGAATCAGCGGTAT +>HWI-EAS91_1_306UPAAXX:6:1:1452:1833 +GCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGT +>HWI-EAS91_1_306UPAAXX:6:1:863:710 +GAGTTCGATAATGGTGATATGTATGTTGACGGCCAT +>HWI-EAS91_1_306UPAAXX:6:1:885:649 +GCAGAAGTTAACACTTTCGGATATTTCTGATGAGTC +>HWI-EAS91_1_306UPAAXX:6:1:917:1214 +GACAGATGTATCCATCTGAATGCAATGAAGAAAACC +>HWI-EAS91_1_306UPAAXX:6:1:892:1254 +GCTCAGGAAATGCAGCAGCAAGATAATCACGAGTAT +>HWI-EAS91_1_306UPAAXX:6:1:1555:1005 +GCATTTGGCGCATAATCTCGGAAACCTGCTGTTGCT +>HWI-EAS91_1_306UPAAXX:6:1:1637:1413 +GATGCTGTTCAACCACTAATAGGTAAGAAATCATGT +>HWI-EAS91_1_306UPAAXX:6:1:1102:1567 +GGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAA +>HWI-EAS91_1_306UPAAXX:6:1:799:1337 +GTATATGCACAAAATGAGATGCTTGCTTATCAACAG +>HWI-EAS91_1_306UPAAXX:6:1:1353:1843 +GCAGACCCATAATGTCAATAGATGTGGTAGAAGTCG +>HWI-EAS91_1_306UPAAXX:6:1:1196:789 +GCGGCATACGCTCGGCGCCAGTTTGAATATTAGACA +>HWI-EAS91_1_306UPAAXX:6:1:1056:1676 +GTAAAATACTGACCAGCCGTTTGAGCTTGAGTAAGC +>HWI-EAS91_1_306UPAAXX:6:1:1349:1836 +GGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTC +>HWI-EAS91_1_306UPAAXX:6:1:1027:788 +GGTGTTAATGCCACTCCTCTCCCGACTGTTAACACT +>HWI-EAS91_1_306UPAAXX:6:1:990:1283 +GCTTAGGGATTTTATTGGTATCAGGGTTAATCGTGC +>HWI-EAS91_1_306UPAAXX:6:1:904:939 +GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT +>HWI-EAS91_1_306UPAAXX:6:1:1732:793 +GTCAACATACATATCACCATTATCGAACTCAACGCC +>HWI-EAS91_1_306UPAAXX:6:1:1355:2003 +GTTAGACCAAACCATGAAACCAACATAAACATTATT +>HWI-EAS91_1_306UPAAXX:6:1:1337:977 +GCACCAGAAACAAAACTAGGGGCGGCCTCATCAGGG +>HWI-EAS91_1_306UPAAXX:6:1:1605:1175 +GGAGGTAAAACCTCTTATGACGCTGACAACCGTCCT +>HWI-EAS91_1_306UPAAXX:6:1:1763:1192 +GACAGGCCGTTTGAATGTTGACGGGATGAACATAAT +>HWI-EAS91_1_306UPAAXX:6:1:722:483 +GTTATTATACCGTCAAGGACTGTGTGACTATTGACT +>HWI-EAS91_1_306UPAAXX:6:1:1760:1136 +GCAAAGCATTGGGATTATCATAAAACGCCTCTAATC +>HWI-EAS91_1_306UPAAXX:6:1:1088:798 +GGAAACCTGCTGTTGCTTGGAAAGATTGGTGTTTTC +>HWI-EAS91_1_306UPAAXX:6:1:633:1076 +GCTACTTCCCAAGAAGCTGTTCAGAATCAGAATGAG +>HWI-EAS91_1_306UPAAXX:6:1:673:754 +GTCATGGAAGCGATAAAACTCTGCAGGTTGGATATT +>HWI-EAS91_1_306UPAAXX:6:1:1759:2019 +GTAAAGGACGGTTGTCAGCGTCATAAGAGGTTTTAC +>HWI-EAS91_1_306UPAAXX:6:1:1064:1797 +GCGGTTATCCATCTGCTTATGGAAGCCAAGCATTGG +>HWI-EAS91_1_306UPAAXX:6:1:1112:1669 +GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACT +>HWI-EAS91_1_306UPAAXX:6:1:510:1447 +GCATTAAGCTCAGGAAATGCAGCAGCAAGATAATCA +>HWI-EAS91_1_306UPAAXX:6:1:877:1573 +GTGCTATTGCTGGCGGTATTTCTTCTTCTTTTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:870:542 +GAATGTCACGCTGATTATTTTGACTTTGAGCGTATC +>HWI-EAS91_1_306UPAAXX:6:1:966:384 +GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA +>HWI-EAS91_1_306UPAAXX:6:1:1186:1903 +GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG +>HWI-EAS91_1_306UPAAXX:6:1:1632:1742 +GCATCACCCATGCCTACAGTATTGTTATCGGTAGCC +>HWI-EAS91_1_306UPAAXX:6:1:1521:559 +GAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGCC +>HWI-EAS91_1_306UPAAXX:6:1:683:454 +GCTTATTATGTTCATCCCGTCAACATTCAAACGTCC +>HWI-EAS91_1_306UPAAXX:6:1:112:1280 +GTTGGCGCTCTCCGTCTTTCTCCATTTCGTCGTGTC +>HWI-EAS91_1_306UPAAXX:6:1:891:381 +GACCAGGGCGAGCGCCAGAACGTTTTTTACCTTTAG +>HWI-EAS91_1_306UPAAXX:6:1:1348:958 +GATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTT +>HWI-EAS91_1_306UPAAXX:6:1:1785:1915 +GCCCCGAAGGGGACNANAAATGGTTTTTAGAGAACG +>HWI-EAS91_1_306UPAAXX:6:1:1418:42 +GTATGCCCATCGCAGTTCGCTACACGCAGGACGCTT +>HWI-EAS91_1_306UPAAXX:6:1:1421:743 +GGTCAACGCTACCTGTAGGAAGTGTCCGCATAAAAT +>HWI-EAS91_1_306UPAAXX:6:1:1079:790 +GCCAAATGCTTACTCAAGCTCAAACGGCTGGTCAGT +>HWI-EAS91_1_306UPAAXX:6:1:663:740 +GGTATTAAGGATGAGTGTTCAAGATTGCTGGATGCC +>HWI-EAS91_1_306UPAAXX:6:1:1245:413 +GTTTGAATGTTGACGGGATGAACATAATAAGCAATG +>HWI-EAS91_1_306UPAAXX:6:1:1378:1035 +GCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGG +>HWI-EAS91_1_306UPAAXX:6:1:903:1746 +GTACGGGGAAGGACGTCAATAGTCACACAGTCCTTG +>HWI-EAS91_1_306UPAAXX:6:1:1713:1134 +GGCGTACGGGGAAGGACGTCAATAGTCACACAGTCC +>HWI-EAS91_1_306UPAAXX:6:1:1246:1887 +GCTCTAATCTCTGGGCATCTGGCTATGATGTTGATG +>HWI-EAS91_1_306UPAAXX:6:1:872:1731 +GGGCGGCCTCATCAGGGTTAGGAACATTAGAGCCTT +>HWI-EAS91_1_306UPAAXX:6:1:1714:1582 +GCTTTCCTGCTCCTGTTGAGTTTATTGCTTCCGTCT +>HWI-EAS91_1_306UPAAXX:6:1:1785:763 +GNCGAGAAATAAAANNNTGAAACATGATTAAANTCC +>HWI-EAS91_1_306UPAAXX:6:1:1684:542 +GAAAAGACAGAATCTCTTCCAAGAGCTTGATGCGGT +>HWI-EAS91_1_306UPAAXX:6:1:1581:1665 +GACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATT +>HWI-EAS91_1_306UPAAXX:6:1:901:1581 +GTGCTGATATTGCTTTTGATGCCGACCCTAAATTTT +>HWI-EAS91_1_306UPAAXX:6:1:1128:239 +GGTTATTATACCGTCAAGGACTGTGTGACTATTGAC +>HWI-EAS91_1_306UPAAXX:6:1:969:441 +GGTAAGAAATCATGAGTCAAGTTACTGAACAATCCG +>HWI-EAS91_1_306UPAAXX:6:1:630:1087 +GCCACCATGATTATGACCAGTGTTTCCAGTCCGTTC +>HWI-EAS91_1_306UPAAXX:6:1:606:1852 +GGAGACAAATAATCTCTTTAATAACCTGATTCAGCG +>HWI-EAS91_1_306UPAAXX:6:1:489:1315 +GAAAGCTCAGTCTCAGGAGGAAGCGGAGCAGTCCAC +>HWI-EAS91_1_306UPAAXX:6:1:465:1983 +GAGCCAATACCATCAGCTTTACCGTCTTTCCAGAAA +>HWI-EAS91_1_306UPAAXX:6:1:559:1028 +GAGTGCTTAATCCAACTTACCAAGCTGGGTTACGAC +>HWI-EAS91_1_306UPAAXX:6:1:1655:1413 +GTATGTTGACGGCCATAAGGCTGCTTCTGACGTTCG +>HWI-EAS91_1_306UPAAXX:6:1:980:605 +GCCGTTTGAATGTTGACGGGATGAACATAATAAGCA +>HWI-EAS91_1_306UPAAXX:6:1:1629:1865 +GAAAAGCGGCATGGTCAATATAACCAGTAGTGTTAT +>HWI-EAS91_1_306UPAAXX:6:1:1180:1920 +GCACTCCGTGGACAGATTTGTCATTGTGAGCATTTT +>HWI-EAS91_1_306UPAAXX:6:1:1116:383 +GCGCAGGAAACACTGACGTTCTTACTGACGCAGAAG +>HWI-EAS91_1_306UPAAXX:6:1:906:2041 +GTCACGTTTATGGTGAACAGTGGATTAAGTTCATGA +>HWI-EAS91_1_306UPAAXX:6:1:1514:157 +GTCAATAGATGTGGTAGAAGTCGTCATTTGGCGTGG +>HWI-EAS91_1_306UPAAXX:6:1:1032:1857 +GCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGT +>HWI-EAS91_1_306UPAAXX:6:1:638:609 +GATTCTGTCAAAAACTGACGCGTTGGATGAGGAGAT +>HWI-EAS91_1_306UPAAXX:6:1:74:750 +GATAATCACGAGTATCCTTTCCTTTATCATCTTCAT +>HWI-EAS91_1_306UPAAXX:6:1:486:822 +GTTGACGATGTAGCTTTAGGTGTCTTTAAAACAGGT +>HWI-EAS91_1_306UPAAXX:6:1:899:473 +GAACAGCATCGGACTCAGATAGTAATCCACGCTCTT +>HWI-EAS91_1_306UPAAXX:6:1:1613:197 +GTGACATTCAGAAGGGTAATAAGAACGAACCATAAA +>HWI-EAS91_1_306UPAAXX:6:1:326:1747 +GTTGAGGCTTTCGTTTATTGTACGCTTTGCTTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:1487:526 +GCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT +>HWI-EAS91_1_306UPAAXX:6:1:629:665 +GAAATGCAGCAGCAAGATAATCACGAGTATCCTTTC +>HWI-EAS91_1_306UPAAXX:6:1:766:744 +GGCCGTCAACATACATATCACCATTATCGAACTCAA +>HWI-EAS91_1_306UPAAXX:6:1:391:1771 +GTGGTTGATATTTTTCATGGTATTGATAAATCTTTT +>HWI-EAS91_1_306UPAAXX:6:1:591:1102 +GCTTTGCGTGACTATTTTCGTGATATTGTTCGTTTG +>HWI-EAS91_1_306UPAAXX:6:1:917:664 +GCCATGATGGTGGTTATTATACCGTCAAGGACTGTG +>HWI-EAS91_1_306UPAAXX:6:1:217:737 +GTTCAGTTGTTGCATTGGAATATTCAGTTTAAATTT +>HWI-EAS91_1_306UPAAXX:6:1:1047:839 +GACCATTCAAAGGATAAACATCATAGGCAGTCGGGG +>HWI-EAS91_1_306UPAAXX:6:1:558:1040 +GCCACCAGCAAGAGCAGAAGCAATACCGCCAGCAAT +>HWI-EAS91_1_306UPAAXX:6:1:1207:524 +GCCAATACCATCAGCTTTACCGTCTTTCCAGAAATT +>HWI-EAS91_1_306UPAAXX:6:1:708:1634 +GCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAG +>HWI-EAS91_1_306UPAAXX:6:1:576:1851 +GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAG +>HWI-EAS91_1_306UPAAXX:6:1:906:460 +GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC +>HWI-EAS91_1_306UPAAXX:6:1:693:1260 +GCGAAAGGTCGCAAAGTAAGAGCTTCTCGAGCTGCG +>HWI-EAS91_1_306UPAAXX:6:1:1373:286 +GGACACTTCCTACAGGTAGCGTTGACCCTAATTTTG +>HWI-EAS91_1_306UPAAXX:6:1:762:41 +GATACTTGGAACAATTTCTGGAAAGACGGTAAAGCT +>HWI-EAS91_1_306UPAAXX:6:1:475:1091 +GTCACACAGTCCTTGACGGTATAATAACCACCATCT +>HWI-EAS91_1_306UPAAXX:6:1:791:627 +GCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACC +>HWI-EAS91_1_306UPAAXX:6:1:336:1791 +GAAGGAGTCGCCAGCGATAACCGGAGTAGTTGAAAT +>HWI-EAS91_1_306UPAAXX:6:1:1483:943 +GCACGTAATTTTTGACGCACGTTTTCTTCTGCGTCT +>HWI-EAS91_1_306UPAAXX:6:1:641:1071 +GATGGGCATACTGTAACCATAAGGCCACGTATTTTG +>HWI-EAS91_1_306UPAAXX:6:1:196:755 +GAACGCCCTCTTAAGGATATTCGCGATGAGTATAAT +>HWI-EAS91_1_306UPAAXX:6:1:463:1398 +GTCATAAGAGGTTTTACCTCCAAATGAAGAAATAAC +>HWI-EAS91_1_306UPAAXX:6:1:1559:460 +GCTCACAATGACAAATCTGTCCACGGAGTGCTTAAT +>HWI-EAS91_1_306UPAAXX:6:1:1625:1561 +GAGGAGTGGCATTAACACCATCCTTCATGAACTTAC +>HWI-EAS91_1_306UPAAXX:6:1:1729:1588 +GCTGATAAAGGAAAGGATACTCGTGATTATCTTGCT +>HWI-EAS91_1_306UPAAXX:6:1:945:393 +GGCCTCATCAGGGTTAGGAACATTAGAGCCTTGAAT +>HWI-EAS91_1_306UPAAXX:6:1:298:1391 +GTAAAGTTAGACCAAACCATGAAACCAACATAAACA +>HWI-EAS91_1_306UPAAXX:6:1:1270:1500 +GAATTACTACTGCTTGTTTACGAATTAAATATATGT +>HWI-EAS91_1_306UPAAXX:6:1:481:1546 +GCTGGCATTCAGTCGGCGACTTCACGCCAGAATACG +>HWI-EAS91_1_306UPAAXX:6:1:473:1729 +GTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAT +>HWI-EAS91_1_306UPAAXX:6:1:801:1831 +GCTGAGGTTGACTTAGTTCATCAGCAAACGCAGAAT +>HWI-EAS91_1_306UPAAXX:6:1:536:639 +GCCGACCCTAAATTTTTTGCCTGTTTGGTTCTCTTT +>HWI-EAS91_1_306UPAAXX:6:1:259:938 +GTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTG +>HWI-EAS91_1_306UPAAXX:6:1:907:1513 +GGCATGGGTGATGCTGGTATTAAATCTGCCATTCAC +>HWI-EAS91_1_306UPAAXX:6:1:372:1409 +GATGAGTATAATTACCCCAAAAAGAAAGGTATTAAG +>HWI-EAS91_1_306UPAAXX:6:1:485:1626 +GATGGCAGCAACGGAAACCATAACGAGCATCATCTT +>HWI-EAS91_1_306UPAAXX:6:1:583:1679 +GCTCAAAGTCAAAATAATCAGCGTGACATTCAGAAG +>HWI-EAS91_1_306UPAAXX:6:1:690:1610 +GACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTT +>HWI-EAS91_1_306UPAAXX:6:1:257:918 +GCAGGCTGGCACTTCTGCCGTTTCTGATAAGTTTCT +>HWI-EAS91_1_306UPAAXX:6:1:818:33 +GTGTTAATGCCACTCCTCTCCCGACTGTTAACTCTG +>HWI-EAS91_1_306UPAAXX:6:1:541:1242 +GGGATTATCATAAAACGCCTCTAATCGGTCGTCAGC +>HWI-EAS91_1_306UPAAXX:6:1:1014:279 +GTAAAAATGTCTACAGTAGAGTCAATAGCAAGGCCC +>HWI-EAS91_1_306UPAAXX:6:1:672:1790 +GGCCGTTTGAATGTTGACGGGATGAACATAATAAGC +>HWI-EAS91_1_306UPAAXX:6:1:708:464 +GGAGACAAATAATCTCTTTAATAACCTGATTCAGCG +>HWI-EAS91_1_306UPAAXX:6:1:633:1486 +GGGAAAGGTCATGCGGCATACGCTCGGCGCCAGTTT +>HWI-EAS91_1_306UPAAXX:6:1:328:696 +GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT +>HWI-EAS91_1_306UPAAXX:6:1:259:1389 +GCGTACTTATTCGCCACCATGATTATTACCAGTGTT +>HWI-EAS91_1_306UPAAXX:6:1:1315:41 +GCTTTCCGTGATGTCACAGCCTGCTTTGATGTGTCG +>HWI-EAS91_1_306UPAAXX:6:1:1647:549 +GCTTAATCCAACTTACCAAGCTGGGTTACGACGCGC +>HWI-EAS91_1_306UPAAXX:6:1:300:886 +GTTCTTGGTCAGTATGCAAATTAGCATAAGCAGCTT +>HWI-EAS91_1_306UPAAXX:6:1:317:1411 +GTACGCTGTACTTTGTGGGATACCCTCGCTTTCCTT +>HWI-EAS91_1_306UPAAXX:6:1:321:1819 +GGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGT +>HWI-EAS91_1_306UPAAXX:6:1:631:70 +GTGGATTACTATCTGAGTCCGATGCTGTTCAACCAC +>HWI-EAS91_1_306UPAAXX:6:1:624:1040 +GCTGGCGACTCCTTCGAGATGGACGCCGTTTGCGCT +>HWI-EAS91_1_306UPAAXX:6:1:662:1187 +GGGAGAGGAGTGGCATTAACACCATCCTTCATGACC +>HWI-EAS91_1_306UPAAXX:6:1:1440:1959 +GAATCAGCGGTATGGCTCCTCTCCTATTTTTGCTTC +>HWI-EAS91_1_306UPAAXX:6:1:458:1629 +GCTGGTGGCGCCATGTCTAAATTTTTTGGAGGCGGT +>HWI-EAS91_1_306UPAAXX:6:1:216:790 +GGGATGAAAATGCTCACAATGACAAATCTGTCCACG +>HWI-EAS91_1_306UPAAXX:6:1:1407:1174 +TTACCTATTAGTGGTTGAACAGCATCGGACTCAGAT +>HWI-EAS91_1_306UPAAXX:6:1:999:1790 +GTCCTGCGTGTAGCGAACTGCGATGGGCATACTGTC +>HWI-EAS91_1_306UPAAXX:6:1:141:1994 +GGCTTTTTTATGGTTCGTTCTTATTACCCTTCTTAT +>HWI-EAS91_1_306UPAAXX:6:1:225:465 +GTCAGATATGGACCTTGCTGCTAAAGGTCTAGGAGC +>HWI-EAS91_1_306UPAAXX:6:1:649:1760 +GACCCATAATGTCAATAGATGTGGTAGAAGTCGTCT +>HWI-EAS91_1_306UPAAXX:6:1:300:986 +GTTGAACACGACCAGAAAACTGGCCTAACGACGTTT +>HWI-EAS91_1_306UPAAXX:6:1:478:605 +GAGACTGAGCTTTCTCGCCAAATGACGACTTCTACC +>HWI-EAS91_1_306UPAAXX:6:1:622:395 +GGTAGCTTTAAGCGGCTCACCTTTAGCATCAACAGG +>HWI-EAS91_1_306UPAAXX:6:1:1701:574 +GTAAAGCCTCTACGCGATTTCATAGTGGAGGCCTCC +>HWI-EAS91_1_306UPAAXX:6:1:646:59 +GGAAGTGTCCGCATAAAATGCACCGCATGGAAATGT +>HWI-EAS91_1_306UPAAXX:6:1:284:2031 +GACAGAATCGTTAGTTGATGGCGAAAGGTCGCAAAG +>HWI-EAS91_1_306UPAAXX:6:1:22:1009 +GATGGATACATCTGTCAACGCCGCTAATCAGGTTGT +>HWI-EAS91_1_306UPAAXX:6:1:47:1826 +GCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCG +>HWI-EAS91_1_306UPAAXX:6:1:1025:1236 +TGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGT +>HWI-EAS91_1_306UPAAXX:6:1:773:591 +GAGCAGGAAAGCGAGGGTATCCCACAAAGTCCAGCG +>HWI-EAS91_1_306UPAAXX:6:1:1753:527 +GGTGGCATTCAAGGTGATGTGCTTGCTACCGATAAC +>HWI-EAS91_1_306UPAAXX:6:1:426:1717 +GTAGCGCCAATATGAGAAGAGCCATACCGCTGATTC +>HWI-EAS91_1_306UPAAXX:6:1:959:818 +TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC +>HWI-EAS91_1_306UPAAXX:6:1:459:1344 +GCCTATGATGTTTATCCTTTGAATGGTCGCCATGAT +>HWI-EAS91_1_306UPAAXX:6:1:973:1367 +TTCGTGATGAGTTTGTATCTGTTACTGATAAGTTAT +>HWI-EAS91_1_306UPAAXX:6:1:201:871 +GATTAGAGGCGTTTTATGATAATCCCAATGCTTTTC +>HWI-EAS91_1_306UPAAXX:6:1:713:1672 +GGCGTACGGGGAAGGACGTCAATAGTCACACAGTCC +>HWI-EAS91_1_306UPAAXX:6:1:444:1435 +TTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGTG +>HWI-EAS91_1_306UPAAXX:6:1:288:1136 +GCCTTCCATGATGAGACAGGCCGTTTTAATTTTTTC +>HWI-EAS91_1_306UPAAXX:6:1:1653:225 +GCAAGGCCACGACGCAATGGAGAAAGACGGAGAGCG +>HWI-EAS91_1_306UPAAXX:6:1:537:1764 +GCTCCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAA +>HWI-EAS91_1_306UPAAXX:6:1:196:1854 +GTATCGAGGCTCTTAAACCTGCTATTTAGGCTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:312:1707 +GCGTCATAAGAGGTTTTACCTCCAAATGAAGAAATA +>HWI-EAS91_1_306UPAAXX:6:1:651:183 +GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT +>HWI-EAS91_1_306UPAAXX:6:1:295:694 +GTGATTACTTCATGCAGCGTTACCGTGATGTTATTT +>HWI-EAS91_1_306UPAAXX:6:1:330:1895 +GCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTG +>HWI-EAS91_1_306UPAAXX:6:1:590:331 +GAAATTTCTATGAATGATGTTTTCCGTTCTGGTGAT +>HWI-EAS91_1_306UPAAXX:6:1:481:1687 +GCAGATTGCGATAAACGGTCACATTAAATTTAACCT +>HWI-EAS91_1_306UPAAXX:6:1:1112:1279 +TGTGCATATACCTGGTCTTTCGTATTCTGTCGTGAT +>HWI-EAS91_1_306UPAAXX:6:1:1099:1216 +TTAGAGCGCATGACAAGTAAAGGACGGTTGTCAGCG +>HWI-EAS91_1_306UPAAXX:6:1:221:1238 +GTATCCTTTCCTTTATCATCGGCAGACTTTTCACCT +>HWI-EAS91_1_306UPAAXX:6:1:1015:364 +GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG +>HWI-EAS91_1_306UPAAXX:6:1:735:1806 +TGTTATTAATATCAAGTTGGGGGAGCACATTGTAGC +>HWI-EAS91_1_306UPAAXX:6:1:320:411 +GCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAGTG +>HWI-EAS91_1_306UPAAXX:6:1:1273:1031 +TTAAGGATATTCGCGATGAGTATAATTACCCCAAAA +>HWI-EAS91_1_306UPAAXX:6:1:1456:1088 +AATAATCAGCGTGACATTCAGAAGGGTAATAAGAAC +>HWI-EAS91_1_306UPAAXX:6:1:1365:307 +GACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAG +>HWI-EAS91_1_306UPAAXX:6:1:478:252 +GATGCGGTTATCCATCTGCTTATTGAAGCCAAGCAT +>HWI-EAS91_1_306UPAAXX:6:1:915:1232 +TATTAATAACACTATAGACCACCGCCCCGAAGGGGC +>HWI-EAS91_1_306UPAAXX:6:1:680:1357 +TTCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGC +>HWI-EAS91_1_306UPAAXX:6:1:238:1279 +GCCGAAGCCCCTGCAATTAAAATTGTTGACCACCTA +>HWI-EAS91_1_306UPAAXX:6:1:1583:35 +GCAAATTAGCATAAGCAGCTTGCAGACCCATAATGT +>HWI-EAS91_1_306UPAAXX:6:1:502:283 +GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT +>HWI-EAS91_1_306UPAAXX:6:1:418:1730 +GAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGT +>HWI-EAS91_1_306UPAAXX:6:1:596:647 +GCCTCAACGCAGCGACGAGCACGAGAGCGGTCAGTA +>HWI-EAS91_1_306UPAAXX:6:1:92:1591 +GTTCATGAAGGATGGTGTTAATGCCACTCCTCTCCC +>HWI-EAS91_1_306UPAAXX:6:1:430:1938 +GCAGGACGCTTTTTCACGTTCTGGTTGGTTGTGTCC +>HWI-EAS91_1_306UPAAXX:6:1:212:527 +GGTATTGATAAAGCTGTTGCCGATACTTGTAACAAT +>HWI-EAS91_1_306UPAAXX:6:1:594:942 +GACGACATTAGAAATATCCTTTGCAGTAGCGCCAAT +>HWI-EAS91_1_306UPAAXX:6:1:169:1774 +GCCTTCCATGATGAGACAGGCCGTTTTAATTTTTAC +>HWI-EAS91_1_306UPAAXX:6:1:1090:210 +GGAGAGCGCCAACGGCGTCCATCTCGAAGGAGTCGC +>HWI-EAS91_1_306UPAAXX:6:1:589:96 +GGCGGCCCCATCAGGGTTAGGAACATTAGAGCCTTG +>HWI-EAS91_1_306UPAAXX:6:1:1477:1231 +TAGGAACATTAGAGCCTTGAATGGCAGATTTAATAC +>HWI-EAS91_1_306UPAAXX:6:1:707:1076 +TCTGACGTTCGTGATGAGTTTGTATCTTTTTCTTTG +>HWI-EAS91_1_306UPAAXX:6:1:749:1715 +GAACATAATAAGCAATGACGGCAGCAATAAACTCAA +>HWI-EAS91_1_306UPAAXX:6:1:1738:1884 +GCTCACCTTTAGCATCAACAGGCCACAACCAACCAG +>HWI-EAS91_1_306UPAAXX:6:1:1160:1088 +TCACATTTTGTTCATGGTAGAGATTCTCTTGTTGAC +>HWI-EAS91_1_306UPAAXX:6:1:517:119 +GCAAGGCTAATGATTCACACGCCGACTGCTATCAGT +>HWI-EAS91_1_306UPAAXX:6:1:1472:716 +TGGTAATGGTGGTTTTCTTCATTTCATTCAGTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:281:441 +GAGCAGTAGACTCCTTCTGTTGATAAGCAAGCATCT +>HWI-EAS91_1_306UPAAXX:6:1:1101:324 +AATACCATCAGCTTTACCGTCTTTCCAGAAATTGTT +>HWI-EAS91_1_306UPAAXX:6:1:1225:1494 +TTCTCAAATCCGGCGTCAACCATACCAGCAGAGGAA +>HWI-EAS91_1_306UPAAXX:6:1:1509:1025 +TTCTTGCTGCCGAGGGTCGCAAGGCTATTGTTTCAC +>HWI-EAS91_1_306UPAAXX:6:1:592:510 +GATACCAATAAAATCCCTAAGCATTTGTTTCTGGTT +>HWI-EAS91_1_306UPAAXX:6:1:324:1729 +GAACAAAGAAACGCGGCACAGAATGTTTATAGGTCT +>HWI-EAS91_1_306UPAAXX:6:1:128:1925 +GGAACAACTCACTAAAAACCAAGCTGTCGCTACTTC +>HWI-EAS91_1_306UPAAXX:6:1:786:893 +TACGGGGAAGGACGTCAATAGTCACACAGTCCTTGC +>HWI-EAS91_1_306UPAAXX:6:1:248:955 +GCTACAATGTGCTCCCCCAACTTGATATTAATAACA +>HWI-EAS91_1_306UPAAXX:6:1:388:1127 +GATATTGGTCGTATGGTTCTTGCTGCCTAGTGTCTC +>HWI-EAS91_1_306UPAAXX:6:1:721:1156 +TCTGGTTGGTTGTGGCCTTTTTATGCTAAATGTTAG +>HWI-EAS91_1_306UPAAXX:6:1:1564:1468 +TTACTTTTTATGTCCCTCATCGTCACGTTTATGTTG +>HWI-EAS91_1_306UPAAXX:6:1:750:77 +GGCTCATTCTGATTCTGAACAGCTTCTTGGGAAGTA +>HWI-EAS91_1_306UPAAXX:6:1:405:487 +GTTGGATTAAGCACTCCGTGGACAGATTTGTCATTT +>HWI-EAS91_1_306UPAAXX:6:1:836:1204 +TTGCTTCTGCTCTTGCTTGTGGCGCCATGTCTAAAT +>HWI-EAS91_1_306UPAAXX:6:1:224:1548 +GCTGCCGTCATTGCTTATTATGTTCATCCCTTCAAC +>HWI-EAS91_1_306UPAAXX:6:1:931:1015 +TTAAGGTACTGAATCTCTTTAGTCGCAGTAGGCGGT +>HWI-EAS91_1_306UPAAXX:6:1:329:579 +GTCCCTCATCGTCACGTTTATGGTGAACAGTGGATT +>HWI-EAS91_1_306UPAAXX:6:1:260:1145 +GCTTGCGTTTATGGTACGCTGGACTTTTTGTGATAC +>HWI-EAS91_1_306UPAAXX:6:1:1523:1253 +TTGGTAAAATACTGACCAGCCGTTTGAGCTTGAGTA +>HWI-EAS91_1_306UPAAXX:6:1:326:1271 +GACCACTCGCGATTCAATCATGACTTCGTGATAAAT +>HWI-EAS91_1_306UPAAXX:6:1:213:622 +GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA +>HWI-EAS91_1_306UPAAXX:6:1:274:712 +GCGGTCAAAAAGCCGCCTCCGGTGGCATTCAAGGTG +>HWI-EAS91_1_306UPAAXX:6:1:1549:627 +TATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAATGT +>HWI-EAS91_1_306UPAAXX:6:1:1714:737 +TCTTTCGTATTCTGGCGTGAAGTCGCCGACTGAATG +>HWI-EAS91_1_306UPAAXX:6:1:760:1217 +TACACGCAGGACGCTTTTTCACGTTCTGGTTGGTTT +>HWI-EAS91_1_306UPAAXX:6:1:174:768 +GTTGGCTGACGACCGATTAGAGGCGTTTTTTTATAT +>HWI-EAS91_1_306UPAAXX:6:1:172:1412 +GGTCGGCAGATTGCGATAAACGTTCACATTAAATTT +>HWI-EAS91_1_306UPAAXX:6:1:1393:869 +TTCATCCCGTCAACATTCAAACGGCCTGTCTCATCT +>HWI-EAS91_1_306UPAAXX:6:1:301:481 +GTTATAGATATTCAAATAACCCTGAAACAAATGCTT +>HWI-EAS91_1_306UPAAXX:6:1:648:1093 +TAACGCTGCATGAAGTAATCACGTTCTTGGTCAGTT +>HWI-EAS91_1_306UPAAXX:6:1:1233:591 +TTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTCT +>HWI-EAS91_1_306UPAAXX:6:1:540:1415 +TTATTAAAGAGATTATTTTTCTCCAGCCACTTATGT +>HWI-EAS91_1_306UPAAXX:6:1:151:1792 +GCAAGCTGCTTATGCTAATTTGCATACTGACCAAGA +>HWI-EAS91_1_306UPAAXX:6:1:748:1378 +TGGATTACTATCTGAGTCCGATGCTGTTCAACCACT +>HWI-EAS91_1_306UPAAXX:6:1:1526:1479 +TGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGCC +>HWI-EAS91_1_306UPAAXX:6:1:985:1093 +TAACCGTCTTCTCGTTCTCTAAAAACCATTTTTCTT +>HWI-EAS91_1_306UPAAXX:6:1:480:1378 +TCAACCTCAGCACTAACCTTGCGAGTCATTTCTTTG +>HWI-EAS91_1_306UPAAXX:6:1:903:753 +TGTGGCCTGTTGATGCTAAAGGTGAGCCGCTTAAAG +>HWI-EAS91_1_306UPAAXX:6:1:1697:1737 +GGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGT +>HWI-EAS91_1_306UPAAXX:6:1:803:1037 +TGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCTACT +>HWI-EAS91_1_306UPAAXX:6:1:1727:1244 +TTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCT +>HWI-EAS91_1_306UPAAXX:6:1:253:1162 +GCATTTAGTAGCGGTAAAGTTTGACCAAACCATTAT +>HWI-EAS91_1_306UPAAXX:6:1:216:856 +GTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCT +>HWI-EAS91_1_306UPAAXX:6:1:825:886 +TCCCACAAAGTCCAGCGTACCATAAACGCAAGCCTC +>HWI-EAS91_1_306UPAAXX:6:1:1699:962 +TGATTTCGATTTTCTGACGAGTAACAAAGTTTGGAT +>HWI-EAS91_1_306UPAAXX:6:1:1210:625 +TCAGATAGTAATCCACGCTCTTTTAAAATGTCAACA +>HWI-EAS91_1_306UPAAXX:6:1:538:616 +TAAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGT +>HWI-EAS91_1_306UPAAXX:6:1:184:1849 +GCTCACCTTTAGCATCAACAGGCCACAACCAACCAG +>HWI-EAS91_1_306UPAAXX:6:1:1636:1103 +TATCTGACTTTTTGTTAACGTATTTAGCCACATAGA +>HWI-EAS91_1_306UPAAXX:6:1:605:223 +GGTTATTTGAATATCTATAACAACTATTTTAAATCG +>HWI-EAS91_1_306UPAAXX:6:1:256:1052 +GGTAAAGGACTTCTTGAAGGTACGTTGCAGTCTGGC +>HWI-EAS91_1_306UPAAXX:6:1:300:1515 +GCCATGATGGTGGTTATTATACCGTCAAGGACTTTT +>HWI-EAS91_1_306UPAAXX:6:1:1684:1320 +TGCTTGGCTTCCATAAGCAGATGGATAACCGCATCA +>HWI-EAS91_1_306UPAAXX:6:1:1186:895 +TCAGATGGATACATCTGTCAACGCCGCTAATCAGGT +>HWI-EAS91_1_306UPAAXX:6:1:1463:754 +TCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTT +>HWI-EAS91_1_306UPAAXX:6:1:808:1053 +TGTCCACGGAGTGCTTAATCCAACTTACCAAGCTGG +>HWI-EAS91_1_306UPAAXX:6:1:960:1218 +TTTCTAATGTCGTCACTGATGCTGCTTCTGTTGTTT +>HWI-EAS91_1_306UPAAXX:6:1:521:1646 +GGAAAACGAACAAGCGCAAGAGTAAACATAGTGCCA +>HWI-EAS91_1_306UPAAXX:6:1:289:1885 +GCCAGCGATAACCGGAGTAGTTGAAATGGTAATAAG +>HWI-EAS91_1_306UPAAXX:6:1:471:170 +GGTCAGTTCCATCAACATCATAGCCAGATGCCCAGA +>HWI-EAS91_1_306UPAAXX:6:1:828:754 +TTTGCGTGACTATTTTCGTGATATTGTTCGTATGGT +>HWI-EAS91_1_306UPAAXX:6:1:924:1679 +TTTAATGTGACCGTTTATCGCAATCTGCCGACCACT +>HWI-EAS91_1_306UPAAXX:6:1:837:901 +TGCATTTTAGTAAGCTCTTTTTGATTCTCAAATCCG +>HWI-EAS91_1_306UPAAXX:6:1:543:16 +GCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTC +>HWI-EAS91_1_306UPAAXX:6:1:1482:578 +TCTTTAGCTCCTAGACCTTTAGCAGCAAGGTCCATA +>HWI-EAS91_1_306UPAAXX:6:1:1254:1668 +TTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCT +>HWI-EAS91_1_306UPAAXX:6:1:1402:898 +TCATGAGTCAAGTTACTGAACAATCCGTACGTTTCC +>HWI-EAS91_1_306UPAAXX:6:1:764:1534 +TTATACCGTCAAGGACTGTGTGACTATTGACGTCCT +>HWI-EAS91_1_306UPAAXX:6:1:681:1079 +TGGCGAATAAGTACGCGTTCTTGCAAATCACCAGAA +>HWI-EAS91_1_306UPAAXX:6:1:672:1350 +TTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTT +>HWI-EAS91_1_306UPAAXX:6:1:1266:493 +TGACCAGCCGTTTGAGCTTGAGTAAGCATTTGGCGC +>HWI-EAS91_1_306UPAAXX:6:1:118:238 +GACGGTATAATAACCACCATCATGGCGACCATTCAA +>HWI-EAS91_1_306UPAAXX:6:1:699:433 +TTATTGCCCGGCGTACGGGGAAGGACGTCAATAGTC +>HWI-EAS91_1_306UPAAXX:6:1:708:1387 +TGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTAC +>HWI-EAS91_1_306UPAAXX:6:1:498:1085 +TTATGATAATCCCAATGCTTTGCGTGACTATTTTCT +>HWI-EAS91_1_306UPAAXX:6:1:1101:1301 +TCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAAT +>HWI-EAS91_1_306UPAAXX:6:1:261:213 +GAATGGTCGCCATGATGGTGGTTATTATACCGTCAC +>HWI-EAS91_1_306UPAAXX:6:1:1287:1267 +TGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGT +>HWI-EAS91_1_306UPAAXX:6:1:744:331 +TTAATGGATGAATTGGCACAATGCTACAATGTGCTC +>HWI-EAS91_1_306UPAAXX:6:1:614:814 +TGTCAGCGTCATAAGAGGTTTTACCTCCAAATGAAG +>HWI-EAS91_1_306UPAAXX:6:1:1362:1063 +TAAACGCAAGCCTCAACGCAGCGACGAGCACGAGAG +>HWI-EAS91_1_306UPAAXX:6:1:1238:1508 +TCAACTAACGATTCTGTCAAAAACTGACGCGTTGGT +>HWI-EAS91_1_306UPAAXX:6:1:904:1130 +TTATCGCAATCTGCCGACCACTCGCGATTCAATCAT +>HWI-EAS91_1_306UPAAXX:6:1:465:216 +GACCATGCCGCTTTTCTTGGCACGATTAACCCTTAT +>HWI-EAS91_1_306UPAAXX:6:1:844:628 +TAATGTCAATAGATGTGGTAGAAGTCGTCATTTGGC +>HWI-EAS91_1_306UPAAXX:6:1:684:1444 +TATCCCACAAAGTCCAGCGTACCATAAACGCAAGCC +>HWI-EAS91_1_306UPAAXX:6:1:515:1373 +TAAGTTCATGAAGGATGGTGTTAATGCCACTCCTCT +>HWI-EAS91_1_306UPAAXX:6:1:764:1667 +TTGAGTTCGATAATGGTGATATGTATGTTGACGTCC +>HWI-EAS91_1_306UPAAXX:6:1:1722:598 +TGAGTTTATTGCTGCCGTCATTGCTTATTATGTTCT +>HWI-EAS91_1_306UPAAXX:6:1:670:1188 +TTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGT +>HWI-EAS91_1_306UPAAXX:6:1:1682:1705 +TAGCCACATAGAAACCAACAGCCATATAACTGGTAG +>HWI-EAS91_1_306UPAAXX:6:1:1008:1616 +TCCTTTACTTGTCATGCGCTCTAATCTCTGTGCATC +>HWI-EAS91_1_306UPAAXX:6:1:490:1220 +TAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCT +>HWI-EAS91_1_306UPAAXX:6:1:891:1437 +TAATGGTGATATGTATGTTTACGTCCATAAGGCTGT +>HWI-EAS91_1_306UPAAXX:6:1:1310:321 +TCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGT +>HWI-EAS91_1_306UPAAXX:6:1:827:1597 +TGCGAGGTACTAAAGGCAAGCGTAAAGGCGCTCGTC +>HWI-EAS91_1_306UPAAXX:6:1:1062:1158 +TAGAGTCAATAGCAAGGCCACGACGCAATGGAGAAA +>HWI-EAS91_1_306UPAAXX:6:1:1419:208 +TGGCGCATAATCTCGGAAACCTGCTGTTGCTTGGAA +>HWI-EAS91_1_306UPAAXX:6:1:691:1018 +AAATATCAACCACACCAGAAGCAGCATCAGTGACGA +>HWI-EAS91_1_306UPAAXX:6:1:374:113 +GATAAAGCTGTTGCCGATACTTGGAACAATTTCTGT +>HWI-EAS91_1_306UPAAXX:6:1:1720:784 +TGAGGATAAATTATGTCTAATATTCAAACTGGCGCC +>HWI-EAS91_1_306UPAAXX:6:1:1424:1394 +ATAAAAATGATTGGCGTATCCAACCTGCAGAGTTTT +>HWI-EAS91_1_306UPAAXX:6:1:1063:1760 +TAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCT +>HWI-EAS91_1_306UPAAXX:6:1:1235:729 +TTTTTATGTCCCTCATCGTCACGTTTATGGTGAACA +>HWI-EAS91_1_306UPAAXX:6:1:167:1507 +TAGTGTTATTAATATCAAGTTTTTGGAGCACATTGT +>HWI-EAS91_1_306UPAAXX:6:1:717:1569 +TCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGT +>HWI-EAS91_1_306UPAAXX:6:1:610:765 +TTCAGCGCCTTCCATGATGAGACAGGCCGTTTGAAT +>HWI-EAS91_1_306UPAAXX:6:1:663:380 +TAAACATTCTGTGCCGCGTTTCTTTGTTCCTTATCT +>HWI-EAS91_1_306UPAAXX:6:1:790:1358 +TTATCACCTTATTGAAGGCTTATCATTCATTTAGGT +>HWI-EAS91_1_306UPAAXX:6:1:965:1633 +TAGATGTGGTAGAAGTCGTCATTTGGCGAGAAAGCT +>HWI-EAS91_1_306UPAAXX:6:1:673:319 +TTCTTGCAAATCACCAGAAGGCGGTTCCTGAATGAT +>HWI-EAS91_1_306UPAAXX:6:1:684:371 +TAGCGGTAAAGTTAGACCAAACCATGAAACCAACAT +>HWI-EAS91_1_306UPAAXX:6:1:1147:1444 +ATCTGTCCACGGAGTGCTTAATCCAACTTACCAAGC +>HWI-EAS91_1_306UPAAXX:6:1:983:678 +ATACCTGGTCTTTCGTATTCTGGCGTGAAGTCGCCG +>HWI-EAS91_1_306UPAAXX:6:1:1608:1119 +TCACGCGGCGGCAAGTTGCCATACAAAACAGGGTCG +>HWI-EAS91_1_306UPAAXX:6:1:1048:1193 +TAGTCAGGTTAAATTTAATGTGACCGTTTATCGCAT +>HWI-EAS91_1_306UPAAXX:6:1:1265:1429 +ATATTTTTCATGGTATTGATAAAGCTGTTGCCGATT +>HWI-EAS91_1_306UPAAXX:6:1:1607:1677 +TGTTGCTTGGAAAGATTGGTGTTTTCCATAATAGAC +>HWI-EAS91_1_306UPAAXX:6:1:1087:1421 +ACGAACGTCAGAAGCAGCCTTATGGCCGTCAACATC +>HWI-EAS91_1_306UPAAXX:6:1:324:490 +GCACCAAACATAAATCACCTCACTTAAGTGGCTGGG +>HWI-EAS91_1_306UPAAXX:6:1:1596:614 +TTACCGCTACTAAATGCCGCGGATTGGTTTCGCTGT +>HWI-EAS91_1_306UPAAXX:6:1:343:83 +GTTACGCAGTTTTGCCGCAAGCTGGCTGCTGTACGC +>HWI-EAS91_1_306UPAAXX:6:1:203:667 +GCATGAATGTGCTTAATAGAGGCCAAGGCGGTCTAG +>HWI-EAS91_1_306UPAAXX:6:1:34:480 +GGCAAGTTGCCATACAAAACAGGGTCGCCAGCAATT +>HWI-EAS91_1_306UPAAXX:6:1:606:1743 +TAGCGACAGCTTGGTTTTTAGTGAGTTGTTCCATTC +>HWI-EAS91_1_306UPAAXX:6:1:254:1391 +TATAATTACCCCAAAAAGAAAGGTATTAAGGATGAG +>HWI-EAS91_1_306UPAAXX:6:1:1568:1750 +TAACCAGTAGTGTTAACAGTCGGGAGAGGAGTGGCT +>HWI-EAS91_1_306UPAAXX:6:1:1538:869 +TACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCA +>HWI-EAS91_1_306UPAAXX:6:1:255:38 +GTCAGGATTGACACCCTCCCAATTGTATGTTTTCAT +>HWI-EAS91_1_306UPAAXX:6:1:1543:1555 +TAAAACGCCTCTAATCGGTCGTCAGCCAACGTGAGG +>HWI-EAS91_1_306UPAAXX:6:1:1365:733 +AGAATCAGCGGTATGGCTCTTCTCCTTTTTTCGCTT +>HWI-EAS91_1_306UPAAXX:6:1:1604:943 +TACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCT +>HWI-EAS91_1_306UPAAXX:6:1:1574:1632 +TCAGTATGCAAATTAGCATAAGCAGCTTGCAGACCC +>HWI-EAS91_1_306UPAAXX:6:1:565:1799 +TCTTGGTCAGTATGCAAATTAGCATAAGCAGCTTGC +>HWI-EAS91_1_306UPAAXX:6:1:1004:380 +TATTGACTCTACTGTAGACATTTTTACTTTTTATTT +>HWI-EAS91_1_306UPAAXX:6:1:1345:965 +ATTCAAAGGATAAACATCATAGGCAGTCGGGAGGGT +>HWI-EAS91_1_306UPAAXX:6:1:1704:756 +TGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGG +>HWI-EAS91_1_306UPAAXX:6:1:310:1346 +TATAACGTTGACGATGTAGCTTTAGTTTTCTTTAAA +>HWI-EAS91_1_306UPAAXX:6:1:900:1858 +TTTACCGCTTCGGCGTTATAACCTCACACTCAATCT +>HWI-EAS91_1_306UPAAXX:6:1:1250:1741 +TAAATCCAAAACGGCAGAAGCCTGAATGAGCTTAAT +>HWI-EAS91_1_306UPAAXX:6:1:1170:1317 +TCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTC +>HWI-EAS91_1_306UPAAXX:6:1:149:1896 +GCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATC +>HWI-EAS91_1_306UPAAXX:6:1:1504:494 +TGTCTACAGTAGAGTCAATAGCAAGGCCACGACGCC +>HWI-EAS91_1_306UPAAXX:6:1:395:256 +GTCCATATCTGACTTTTTGTTAACGTATTTATCCAC +>HWI-EAS91_1_306UPAAXX:6:1:1110:1109 +ACCGCTTCGGCGTTATAACCTCACACTCAATCTTTT +>HWI-EAS91_1_306UPAAXX:6:1:895:649 +TTCTGCACGTAATTTTTGACGCACGTTTTCTTCTGC +>HWI-EAS91_1_306UPAAXX:6:1:827:1378 +TGCAAGCTGCTTATGCTAATTTGCATACTGACCAAG +>HWI-EAS91_1_306UPAAXX:6:1:1051:1587 +TTTGACACTCTCACGTTGGCTGACGACCGATTAGAG +>HWI-EAS91_1_306UPAAXX:6:1:1656:1549 +AACCTGCTGTTGCTTGGAAAGATTGGTGTTTTCCAT +>HWI-EAS91_1_306UPAAXX:6:1:366:150 +GGTCAGTAGCAATCCAAACTTTGTTACTCGTCAGAA +>HWI-EAS91_1_306UPAAXX:6:1:955:1792 +ATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTA +>HWI-EAS91_1_306UPAAXX:6:1:1340:1403 +ATAAAATGCACCGCATGGAAATGAAGACGGCCATTA +>HWI-EAS91_1_306UPAAXX:6:1:1693:1017 +TGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGT +>HWI-EAS91_1_306UPAAXX:6:1:1099:1572 +AATTTTTACCGCTTCGGCGTTATAACCTCACACTCA +>HWI-EAS91_1_306UPAAXX:6:1:218:1148 +TATGCAAATTAGCATAAGCAGCTTGCAGACCCATAT +>HWI-EAS91_1_306UPAAXX:6:1:403:614 +TGGTGCTGATGCTTCCTCTGCTGGTATGGTTTACGC +>HWI-EAS91_1_306UPAAXX:6:1:1651:646 +TCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGC +>HWI-EAS91_1_306UPAAXX:6:1:1566:499 +TGCGGTGCATTTTATGCGGACACTTCCTACAGGTAG +>HWI-EAS91_1_306UPAAXX:6:1:825:951 +ACAGGCCGTTTGAATGTTTACGGGGTGTACATAATA +>HWI-EAS91_1_306UPAAXX:6:1:1745:1865 +TTAACTTCTGCGTCATGGAAGCGATAAAACTCTGCG +>HWI-EAS91_1_306UPAAXX:6:1:973:1992 +TAGTAATTCCTGCTTTATCAAGATAATTTTTCGACT +>HWI-EAS91_1_306UPAAXX:6:1:171:1653 +TAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGT +>HWI-EAS91_1_306UPAAXX:6:1:397:363 +TGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGT +>HWI-EAS91_1_306UPAAXX:6:1:1336:1155 +ATATGTATGTTGACGGCCATAAGGCTGCTTCTGACG +>HWI-EAS91_1_306UPAAXX:6:1:685:629 +AGTATGCAAATTAGCATAAGCAGCTTGCAGACCCAT +>HWI-EAS91_1_306UPAAXX:6:1:1409:510 +ACATAATAAGCAATGACGGCAGCAATAAACTCAACA +>HWI-EAS91_1_306UPAAXX:6:1:1631:998 +AACCATCAGCATGAGCCTGTCGCATTGCATTCATCC +>HWI-EAS91_1_306UPAAXX:6:1:260:1698 +TTATTATGTTCATCCCGTCAACATTCAAACTGCCTT +>HWI-EAS91_1_306UPAAXX:6:1:578:971 +TTAACGCTACTAAATTCCGCGGATTGGTTTCGTTGT +>HWI-EAS91_1_306UPAAXX:6:1:1613:642 +ATAGAAATTTCACGCGGCGGCAAGTTGCCATACAAA +>HWI-EAS91_1_306UPAAXX:6:1:237:650 +GACGGTATAATAACCACCATCATGGCGACCATTCAA +>HWI-EAS91_1_306UPAAXX:6:1:1100:1875 +TTATGGTTCGTTCTTATTACCCTTCTGAATGTCACG +>HWI-EAS91_1_306UPAAXX:6:1:352:32 +GTACCATAAACGCAAGCCTCAACGCAGCGACGAGCC +>HWI-EAS91_1_306UPAAXX:6:1:443:229 +GCAGTAGGCGGAAAACGAACAAGCGCAAGAGTAAAC +>HWI-EAS91_1_306UPAAXX:6:1:1131:731 +AGCAGTCGGCGTGTGAATCATTAGCCTTGCGACCCT +>HWI-EAS91_1_306UPAAXX:6:1:133:1089 +AAGGTTAGTGCTGAGGTTGACTTAGTTCATCATCAA +>HWI-EAS91_1_306UPAAXX:6:1:65:1307 +TGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTT +>HWI-EAS91_1_306UPAAXX:6:1:905:1493 +TCAGCTTTACCGTCTTTCCAGAAATTGTTCCAAGTT +>HWI-EAS91_1_306UPAAXX:6:1:733:540 +TGCCGCGGATTGGTTTCGCTGAATCAGGTTATTAAT +>HWI-EAS91_1_306UPAAXX:6:1:161:1707 +TAATGTCGTCACTGATGCTGCTTCTGTTGTTGTTTT +>HWI-EAS91_1_306UPAAXX:6:1:380:1861 +TCTGGGCATCTGGCTATGATGTTGATGGAACTGACC +>HWI-EAS91_1_306UPAAXX:6:1:1761:566 +TATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAT +>HWI-EAS91_1_306UPAAXX:6:1:1486:651 +TGGCGGTATTTCTTCTTCTCTTTCTTGTTGCGCCCT +>HWI-EAS91_1_306UPAAXX:6:1:508:1380 +TCCATCAACATCATAGCCAGATGCCCAGAGATTAGA +>HWI-EAS91_1_306UPAAXX:6:1:1763:855 +TGTTTTGTATGGCAACTTGCCGCCGCGTGAAATTTC +>HWI-EAS91_1_306UPAAXX:6:1:1553:553 +TAATTGCAGGGGCTTCGGCCCCTTACTTGAGGATAA +>HWI-EAS91_1_306UPAAXX:6:1:1424:507 +TCCACTGCAACAACTGAACGGACTGGAAACACTGGT +>HWI-EAS91_1_306UPAAXX:6:1:988:135 +TAAGCTGGTTCTCACTTCTGTTACTCCAGCTTCTTC +>HWI-EAS91_1_306UPAAXX:6:1:810:1918 +TTTTCATCCCGAAGTTGCGGCTCATTCTGATTCTGT +>HWI-EAS91_1_306UPAAXX:6:1:588:559 +TCTGGTTGAACGGCGTCGCGTCGTAACCCAGCTTGG +>HWI-EAS91_1_306UPAAXX:6:1:1264:1214 +ATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCAC +>HWI-EAS91_1_306UPAAXX:6:1:1000:1475 +TCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTG +>HWI-EAS91_1_306UPAAXX:6:1:1389:160 +TTATTCGCCACCATGATTATGACCAGTGTTTCCAGT +>HWI-EAS91_1_306UPAAXX:6:1:422:1296 +TTCAACTACTCCGGTTATCGCTGGCGACTCCTTCGT +>HWI-EAS91_1_306UPAAXX:6:1:1273:856 +TAGCCATAGCACCAGAAACAAAACTAGGGGCGGCCT +>HWI-EAS91_1_306UPAAXX:6:1:450:969 +TGTTTTCCATAATAGACGCAACGCGAGCAGTAGACT +>HWI-EAS91_1_306UPAAXX:6:1:1202:828 +ATCGTCAACGTTATATTTTGATAGTTTGACGTTTAT +>HWI-EAS91_1_306UPAAXX:6:1:1721:1800 +GGGTTAGGGACATTAGAGCCTTGACTGACTGAGTTT +>HWI-EAS91_1_306UPAAXX:6:1:228:2019 +TTGAGTAAGCATTTGGCGCATAATCTCGGAAACCTG +>HWI-EAS91_1_306UPAAXX:6:1:1579:1214 +ACGTTTGGTCAGTTCCATCAACATCATAGCCAGATG +>HWI-EAS91_1_306UPAAXX:6:1:429:1055 +TTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTCTTT +>HWI-EAS91_1_306UPAAXX:6:1:1359:1689 +AAGAGCAGAAGCAATACCGCCAGCAATAGCACCAAA +>HWI-EAS91_1_306UPAAXX:6:1:1474:1056 +TCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGAC +>HWI-EAS91_1_306UPAAXX:6:1:105:1818 +TTGGGGATTGAGAAAGAGTAGAAATGCCACAAGCCT +>HWI-EAS91_1_306UPAAXX:6:1:208:1538 +TAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA +>HWI-EAS91_1_306UPAAXX:6:1:1361:1623 +AATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTA +>HWI-EAS91_1_306UPAAXX:6:1:595:1670 +TGAATCTCTTTAGTCGCAGTAGGCGGAAAACGAACA +>HWI-EAS91_1_306UPAAXX:6:1:6:1885 +TCTAATGTCGTCACTGATGCTGCTTCTGGTGTGTTT +>HWI-EAS91_1_306UPAAXX:6:1:706:1085 +TGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTG +>HWI-EAS91_1_306UPAAXX:6:1:1307:825 +AGCGGTAAAGTTAGACCAAACCATGAAACCAACATA +>HWI-EAS91_1_306UPAAXX:6:1:762:802 +TGGCATTAACACCATCCTTCATGAACTTAATCCACT +>HWI-EAS91_1_306UPAAXX:6:1:1657:506 +TTGCGACCCTCGGCAGCAAGAACCATACGACCAATT +>HWI-EAS91_1_306UPAAXX:6:1:184:811 +TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC +>HWI-EAS91_1_306UPAAXX:6:1:1469:1718 +TGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCTTT +>HWI-EAS91_1_306UPAAXX:6:1:815:1640 +TGGCGGCGATTGCGTACCCGACGACCCAAATTAGGG +>HWI-EAS91_1_306UPAAXX:6:1:1580:1388 +AAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTG +>HWI-EAS91_1_306UPAAXX:6:1:1617:1554 +TACGGGGAAGGACGTCAATAGTCACACAGTCCTTGA +>HWI-EAS91_1_306UPAAXX:6:1:1544:431 +TGATGCTAAAGGTGAGCCGCTTAAAGCTACCAGTTA +>HWI-EAS91_1_306UPAAXX:6:1:1604:1541 +TCAGTGACGACATTAGAAATATCCTTTGCAGTAGCG +>HWI-EAS91_1_306UPAAXX:6:1:1485:741 +ATCAAACGCTGAATAGTAAAGCCTCTACGCGATTTC +>HWI-EAS91_1_306UPAAXX:6:1:1226:393 +TGCCACAAGCCTCAATAGCAGGTTTAAGAGCCTCGA +>HWI-EAS91_1_306UPAAXX:6:1:1506:973 +ATTAGGGTCAACGCTACCTGTAGGAAGTGTCCGCAT +>HWI-EAS91_1_306UPAAXX:6:1:890:1838 +TGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGC +>HWI-EAS91_1_306UPAAXX:6:1:453:1527 +TAAGAGGGCGTTCAGCAGCCAGCTTGCGGCAAAACT +>HWI-EAS91_1_306UPAAXX:6:1:1056:570 +ACATTGTAGCATTGTGCCAATTCATCCATTAACTTC +>HWI-EAS91_1_306UPAAXX:6:1:1736:74 +TATCCGAAAGTGTTAACTTCTGCGTCATGGAAGCGT +>HWI-EAS91_1_306UPAAXX:6:1:169:1896 +GTATGCAAATTAGCATAAGCAGCTTGCAGACCCATA +>HWI-EAS91_1_306UPAAXX:6:1:259:949 +TGAGGATAAATTATGTCTAATATTCAAACTTGCTCC +>HWI-EAS91_1_306UPAAXX:6:1:1205:893 +ATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCT +>HWI-EAS91_1_306UPAAXX:6:1:732:1335 +TACTCGTGATTATCTTGCTGCTGCATTTCCTGAGCT +>HWI-EAS91_1_306UPAAXX:6:1:667:664 +TCTGAGTCCGATGCTGTTCAACCACTAATAGGTAAG +>HWI-EAS91_1_306UPAAXX:6:1:535:587 +TTAGAGGCGTTTTATGATAATCCCAATGCTTTGCGT +>HWI-EAS91_1_306UPAAXX:6:1:412:446 +GTGTGGTTGATATTTTTCATGGTATTGATAAAGCTT +>HWI-EAS91_1_306UPAAXX:6:1:507:1599 +TTGCTGGCGGTTTTTCTTTTTTTTTTTTTTTTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:575:1818 +TAAAATGCACCGCATGGAAATGAAGACGGCCATTAG +>HWI-EAS91_1_306UPAAXX:6:1:1568:1428 +ACCAGTTATATGGCTGGTTGTTTTTTTTTTTTTTTT +>HWI-EAS91_1_306UPAAXX:6:1:1417:982 +AACAAGAGAATCTCTACCATGAACAAAATGTGACTC +>HWI-EAS91_1_306UPAAXX:6:1:280:1340 +GGCCAAACCAGTGGCGATGGCCGCGCTGGAGGTTTT +>HWI-EAS91_1_306UPAAXX:6:1:966:144 +TACTAAATGCCGCGGATTGGTTTCGCTGAATCAGGT +>HWI-EAS91_1_306UPAAXX:6:1:1391:1987 +TAATAATGTTTTCCGTAAATTCAGCGCCTTCCATGT +>HWI-EAS91_1_306UPAAXX:6:1:1280:278 +ATGGAAATGAAGACGGCCATTAGCTGTACCATACTC +>HWI-EAS91_1_306UPAAXX:6:1:631:858 +TGATATTGGTCGTATGGTTCTTGCTTCCGTGGGTCT +>HWI-EAS91_1_306UPAAXX:6:1:518:573 +TTAGGTGTCTGTAAAACAGGTGCCGAAGAAGCTGGT +>HWI-EAS91_1_306UPAAXX:6:1:54:981 +TTGACATTTTAAAAGAGCGTGGATTACTATCTGATT +>HWI-EAS91_1_306UPAAXX:6:1:218:1165 +TATTGACTCTACTGTAGACATTTTTACTTTTTATTT +>HWI-EAS91_1_306UPAAXX:6:1:1727:1530 +TCAACGCAGCGACGAGCACGAGAGCGGTCAGTAGCA +>HWI-EAS91_1_306UPAAXX:6:1:519:657 +TGAACAGCATCGGACTCAGATAGTAATCCACGCTCT +>HWI-EAS91_1_306UPAAXX:6:1:939:967 +ATACCGTCAAGGACTGTGTGACTATTGACGTCCTTC +>HWI-EAS91_1_306UPAAXX:6:1:299:1060 +TATAACTGGTAGCTTTAAGCGGCTCACCTTTAGCAT +>HWI-EAS91_1_306UPAAXX:6:1:438:665 +TAATTCGTAAACAAGCAGTAGTAATTCCTGCTTTAT +>HWI-EAS91_1_306UPAAXX:6:1:1303:1971 +AGCATTGTGCCAATTCATCCATTAACTTCTCAGTAA +>HWI-EAS91_1_306UPAAXX:6:1:214:1264 +TCAGCACCAACAGAAACAACCTGATTAGCGGCGTTG +>HWI-EAS91_1_306UPAAXX:6:1:1454:1423 +AACGGAAAACATCCTTCATAGAAATTTCACGCGGCG +>HWI-EAS91_1_306UPAAXX:6:1:1633:340 +TTCCATAATAGACGCAACGCGAGCAGTAGACTCCTT +>HWI-EAS91_1_306UPAAXX:6:1:671:1196 +ATACGAAAAGACAGAATCTCTTCCAAGAGCTTGATG diff -r 8d149264b777 -r efdb6fb5de34 test-data/lastz_wrapper_out1.sam --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/lastz_wrapper_out1.sam Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,494 @@ +@HD VN:1.0 SO:unsorted +@SQ SN:phiX LN:5386 +HWI-EAS91_1_306UPAAXX 16 phiX 4295 255 1H35M * 0 0 CCCCCAACTTGATATTAATAACACTATAGACCACC * +HWI-EAS91_1_306UPAAXX 16 phiX 3522 255 36M * 0 0 ATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGC * +HWI-EAS91_1_306UPAAXX 0 phiX 229 255 36M * 0 0 GATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2071 255 36M * 0 0 GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT * +HWI-EAS91_1_306UPAAXX 16 phiX 1067 255 1H35M * 0 0 GGTCAGATTGGTCGTCTTATTACCATTTCAACTAC * +HWI-EAS91_1_306UPAAXX 0 phiX 1788 255 36M * 0 0 GTCGTGTTCAACAGACCTATAAACATTCTGTGCCGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1193 255 36M * 0 0 GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4563 255 33M3H * 0 0 GGTTGGTTTATCGTTTTTGACACTCTCACGTTG * +HWI-EAS91_1_306UPAAXX 0 phiX 2668 255 36M * 0 0 GTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 4248 255 36M * 0 0 GTTACTGAGAAGTTAATGGATGAATTGGCACAATGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2863 255 36M * 0 0 GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT * +HWI-EAS91_1_306UPAAXX 0 phiX 2557 255 36M * 0 0 GGTTTTCTTCATTGCATTCAGATGGATACATCTGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2511 255 34M2H * 0 0 GTCAACGTTATATTTTGATAGTTTGACGGTTAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 5152 255 36M * 0 0 GGATGAAAATGCTCACAATGACAAATCTGTCCACGG * +HWI-EAS91_1_306UPAAXX 16 phiX 1590 255 36M * 0 0 AAGCTGCTTATGCTAATTTGCATACTGACCAAGAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4884 255 36M * 0 0 GGTTACAGTATGCCCATCGCAGTTCGCTACACGCAG * +HWI-EAS91_1_306UPAAXX 0 phiX 5052 255 36M * 0 0 GCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 4909 255 36M * 0 0 GCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2863 255 36M * 0 0 GGATTGGTTTCGCTGAATCAGGTTATTAAAGAGATT * +HWI-EAS91_1_306UPAAXX 0 phiX 4173 255 30M6H * 0 0 GTTGAGTTCGATAATGGTGATATGTATGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 1701 255 36M * 0 0 GTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCAT * +HWI-EAS91_1_306UPAAXX 16 phiX 1683 255 36M * 0 0 CTTATGACGCTGACAACCGTCCTTTACTTGTCATGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3126 255 1H35M * 0 0 GAGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1665 255 36M * 0 0 CATTTGGAGGTAAAACCTCTTATGACGCTGACAACC * +HWI-EAS91_1_306UPAAXX 0 phiX 3213 255 36M * 0 0 GTTTCTGATAAGTTGCTTGATTTGGTTGGACTTGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 3420 255 36M * 0 0 GAGATTGCCGAGATGCAAAATGAGACTCAAAAAGAG * +HWI-EAS91_1_306UPAAXX 0 phiX 513 255 36M * 0 0 GTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGC * +HWI-EAS91_1_306UPAAXX 16 phiX 2882 255 3H33M * 0 0 AGGTTATTAAAGAGATTATTTGTCTCCAGCCAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4471 255 36M * 0 0 GTTCAAGATTGCTGGAGGCCTCCACTATGAAATCGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1229 255 36M * 0 0 GTTTATGGTGAACAGTGGATTAAGTTCATGAAGGAT * +HWI-EAS91_1_306UPAAXX 0 phiX 615 255 36M * 0 0 GAGTTTATTGCTGCCGTCATTGCTTATTATGTTCAT * +HWI-EAS91_1_306UPAAXX 16 phiX 257 255 36M * 0 0 GCACGTTCGTCAAGGACTGGTTTAGATATGAGTCAC * +HWI-EAS91_1_306UPAAXX 16 phiX 2381 255 36M * 0 0 TTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTC * +HWI-EAS91_1_306UPAAXX 16 phiX 4098 255 36M * 0 0 ATGCTTGGCTTCCATAAGCAGATGGATAACCGCATC * +HWI-EAS91_1_306UPAAXX 0 phiX 5099 255 36M * 0 0 GCTGTCGCTACTTCCCAAGAAGCTGTTCAGAATCAG * +HWI-EAS91_1_306UPAAXX 0 phiX 4254 255 36M * 0 0 GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 3408 255 36M * 0 0 GACAATCAGAAAGAGATTGCCGAGATGCAAAATGAG * +HWI-EAS91_1_306UPAAXX 16 phiX 4043 255 36M * 0 0 GGCTCTTAAACCTGCTATTGAGGCTTGTGGCATTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 4560 255 36M * 0 0 GATGGTTGGTTTATCGTTTTTGACACTCTCACGTTG * +HWI-EAS91_1_306UPAAXX 0 phiX 1888 255 36M * 0 0 GACTAAAGAGATTCAGTACCTTAACGCTAAAGGTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3434 255 1H35M * 0 0 GCAAAATGAGACTCAAAAAGAGATTGCTGGCATTC * +HWI-EAS91_1_306UPAAXX 0 phiX 4539 255 36M * 0 0 GCAATGCGACAGGCTCATGCTGATGGTTGGTTTATC * +HWI-EAS91_1_306UPAAXX 16 phiX 1828 255 36M * 0 0 CTTTGTTCCTGAGCATGGCACTATGTTTACTCTTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 3708 255 36M * 0 0 GACTTAGTTCATCAGCAAACGCAGAATCAGCGGTAT * +HWI-EAS91_1_306UPAAXX 0 phiX 3326 255 36M * 0 0 GCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 4176 255 36M * 0 0 GAGTTCGATAATGGTGATATGTATGTTGACGGCCAT * +HWI-EAS91_1_306UPAAXX 0 phiX 22 255 36M * 0 0 GCAGAAGTTAACACTTTCGGATATTTCTGATGAGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2557 255 36M * 0 0 GGTTTTCTTCATTGCATTCAGATGGATACATCTGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 3277 255 36M * 0 0 ATACTCGTGATTATCTTGCTGCTGCATTTCCTGAGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3592 255 36M * 0 0 AGCAACAGCAGGTTTCCGAGATTATGCGCCAAATGC * +HWI-EAS91_1_306UPAAXX 0 phiX 358 255 35M1H * 0 0 GATGCTGTTCAACCACTAATAGGTAAGAAATCATG * +HWI-EAS91_1_306UPAAXX 0 phiX 1775 255 36M * 0 0 GGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAA * +HWI-EAS91_1_306UPAAXX 0 phiX 3504 255 36M * 0 0 GTATATGCACAAAATGAGATGCTTGCTTATCAACAG * +HWI-EAS91_1_306UPAAXX 16 phiX 1554 255 36M * 0 0 CGACTTCTACCACATCTATTGACATTATGGGTCTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1002 255 36M * 0 0 TGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3626 255 36M * 0 0 GCTTACTCAAGCTCAAACGGCTGGTCAGTATTTTAC * +HWI-EAS91_1_306UPAAXX 0 phiX 3572 255 36M * 0 0 GGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 1265 255 36M * 0 0 GGTGTTAATGCCACTCCTCTCCCGACTGTTAACACT * +HWI-EAS91_1_306UPAAXX 16 phiX 1332 255 36M * 0 0 GCACGATTAACCCTGATACCAATAAAATCCCTAAGC * +HWI-EAS91_1_306UPAAXX 0 phiX 4254 255 36M * 0 0 GAGAAGTTAATGGATGAATTGGCACAATGCTACAAT * +HWI-EAS91_1_306UPAAXX 16 phiX 4170 255 36M * 0 0 GGCGTTGAGTTCGATAATGGTGATATGTATGTTGAC * +HWI-EAS91_1_306UPAAXX 16 phiX 2812 255 6H30M * 0 0 GTTTATGTTGGTTTCATGGTTTGGTCTAAC * +HWI-EAS91_1_306UPAAXX 16 phiX 3119 255 36M * 0 0 CCCTGATGAGGCCGCCCCTAGTTTTGTTTCTGGTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1670 255 36M * 0 0 GGAGGTAAAACCTCTTATGACGCTGACAACCGTCCT * +HWI-EAS91_1_306UPAAXX 16 phiX 640 255 36M * 0 0 ATTATGTTCATCCCGTCAACATTCAAACGGCCTGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2750 255 35M1H * 0 0 GTTATTATACCGTCAAGGACTGTGTGACTATTGAC * +HWI-EAS91_1_306UPAAXX 16 phiX 4606 255 36M * 0 0 GATTAGAGGCGTTTTATGATAATCCCAATGCTTTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3573 255 36M * 0 0 GAAAACACCAATCTTTCCAAGCAACAGCAGGTTTCC * +HWI-EAS91_1_306UPAAXX 0 phiX 5105 255 36M * 0 0 GCTACTTCCCAAGAAGCTGTTCAGAATCAGAATGAG * +HWI-EAS91_1_306UPAAXX 16 phiX 1 255 15H21M * 0 0 GAGTTTTATCGCTTCCATGAC * +HWI-EAS91_1_306UPAAXX 16 phiX 1674 255 36M * 0 0 GTAAAACCTCTTATGACGCTGACAACCGTCCTTTAC * +HWI-EAS91_1_306UPAAXX 16 phiX 4095 255 36M * 0 0 CCAATGCTTGGCTTCCATAAGCAGATGGATAACCGC * +HWI-EAS91_1_306UPAAXX 0 phiX 4551 255 36M * 0 0 GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACT * +HWI-EAS91_1_306UPAAXX 16 phiX 3284 255 36M * 0 0 TGATTATCTTGCTGCTGCATTTCCTGAGCTTAATGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2938 255 20M16H * 0 0 GTGCTATTGCTGGCGGTATT * +HWI-EAS91_1_306UPAAXX 0 phiX 4005 255 36M * 0 0 GAATGTCACGCTGATTATTTTGACTTTGAGCGTATC * +HWI-EAS91_1_306UPAAXX 0 phiX 2479 255 36M * 0 0 GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA * +HWI-EAS91_1_306UPAAXX 16 phiX 1082 255 36M * 0 0 CTTATTACCATTTCAACTACTCCGGTTATCGCTGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3045 255 1H35M * 0 0 GCTACCGATAACAATACTGTAGGCATGGGTGATGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1115 255 36M * 0 0 GGCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 636 255 33M3H * 0 0 GCTTATTATGTTCATCCCGTCAACATTCAAACG * +HWI-EAS91_1_306UPAAXX 0 phiX 1139 255 34M2H * 0 0 GTTGGCGCTCTCCGTCTTTCTCCATTTCGTCGTG * +HWI-EAS91_1_306UPAAXX 16 phiX 852 255 36M * 0 0 CTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTGGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 5272 255 36M * 0 0 GATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTT * +HWI-EAS91_1_306UPAAXX 0 phiX 4330 255 36M * 0 0 GCCCCGAAGGGGACNANAAATGGTTTTTAGAGAACG * +HWI-EAS91_1_306UPAAXX 0 phiX 4891 255 36M * 0 0 GTATGCCCATCGCAGTTCGCTACACGCAGGACGCTT * +HWI-EAS91_1_306UPAAXX 16 phiX 4785 255 2H34M * 0 0 TTTATGCGGACACTTCCTACAGGTAGCGTTGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 3619 255 36M * 0 0 GCCAAATGCTTACTCAAGCTCAAACGGCTGGTCAGT * +HWI-EAS91_1_306UPAAXX 0 phiX 4455 255 32M4H * 0 0 GGTATTAAGGATGAGTGTTCAAGATTGCTGGA * +HWI-EAS91_1_306UPAAXX 16 phiX 632 255 36M * 0 0 CATTGCTTATTATGTTCATCCCGTCAACATTCAAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 2964 255 35M1H * 0 0 GCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGG * +HWI-EAS91_1_306UPAAXX 16 phiX 2763 255 36M * 0 0 CAAGGACTGTGTGACTATTGACGTCCTTCCCCGTAC * +HWI-EAS91_1_306UPAAXX 16 phiX 2766 255 36M * 0 0 GGACTGTGTGACTATTGACGTCCTTCCCCGTACGCC * +HWI-EAS91_1_306UPAAXX 0 phiX 1719 255 36M * 0 0 GCTCTAATCTCTGGGCATCTGGCTATGATGTTGATG * +HWI-EAS91_1_306UPAAXX 16 phiX 3100 255 36M * 0 0 AAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCCC * +HWI-EAS91_1_306UPAAXX 0 phiX 598 255 29M7H * 0 0 GCTTTCCTGCTCCTGTTGAGTTTATTGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 4126 255 36M * 0 0 ACCGCATCAAGCTCTTGGAAGAGATTCTGTCTTTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 4026 255 36M * 0 0 GACTTTGAGCGTATCGAGGCTCTTAAACCTGCTATT * +HWI-EAS91_1_306UPAAXX 0 phiX 2621 255 36M * 0 0 GTGCTGATATTGCTTTTGATGCCGACCCTAAATTTT * +HWI-EAS91_1_306UPAAXX 0 phiX 2749 255 36M * 0 0 GGTTATTATACCGTCAAGGACTGTGTGACTATTGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 379 255 36M * 0 0 GGTAAGAAATCATGAGTCAAGTTACTGAACAATCCG * +HWI-EAS91_1_306UPAAXX 0 phiX 2160 255 36M * 0 0 GCCACCATGATTATGACCAGTGTTTCCAGTCCGTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2873 255 36M * 0 0 CGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCC * +HWI-EAS91_1_306UPAAXX 16 phiX 1508 255 1H35M * 0 0 TGGACTGCTCCGCTTCCTCCTGAGACTGAGCTTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 3863 255 36M * 0 0 TTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 5187 255 36M * 0 0 GAGTGCTTAATCCAACTTACCAAGCTGGGTTACGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4196 255 36M * 0 0 GTATGTTGACGGCCATAAGGCTGCTTCTGACGTTCG * +HWI-EAS91_1_306UPAAXX 16 phiX 635 255 36M * 0 0 TGCTTATTATGTTCATCCCGTCAACATTCAAACGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1294 255 1H35M * 0 0 TAACACTACTGGTTATATTGACCATGCCGCTTTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 5157 255 36M * 0 0 AAAATGCTCACAATGACAAATCTGTCCACGGAGTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 772 255 36M * 0 0 GCGCAGGAAACACTGACGTTCTTACTGACGCAGAAG * +HWI-EAS91_1_306UPAAXX 0 phiX 1224 255 36M * 0 0 GTCACGTTTATGGTGAACAGTGGATTAAGTTCATGA * +HWI-EAS91_1_306UPAAXX 16 phiX 1544 255 3H33M * 0 0 CGCCAAATGACGACTTCTACCACATCTATTGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4840 255 36M * 0 0 GCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGT * +HWI-EAS91_1_306UPAAXX 0 phiX 204 255 35M1H * 0 0 GATTCTGTCAAAAACTGACGCGTTGGATGAGGAGA * +HWI-EAS91_1_306UPAAXX 16 phiX 3263 255 7H29M * 0 0 TGATAAAGGAAAGGATACTCGTGATTATC * +HWI-EAS91_1_306UPAAXX 16 phiX 2481 255 36M * 0 0 ACCTGTTTTAAAGACACCTAAAGCTACATCGTCAAC * +HWI-EAS91_1_306UPAAXX 16 phiX 332 255 36M * 0 0 AAGAGCGTGGATTACTATCTGAGTCCGATGCTGTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 3978 255 36M * 0 0 TTTATGGTTCGTTCTTATTACCCTTCTGAATGTCAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4865 255 36M * 0 0 GCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT * +HWI-EAS91_1_306UPAAXX 16 phiX 3271 255 36M * 0 0 GAAAGGATACTCGTGATTATCTTGCTGCTGCATTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 4174 255 36M * 0 0 TTGAGTTCGATAATGGTGATATGTATGTTGACGGCC * +HWI-EAS91_1_306UPAAXX 0 phiX 3810 255 30M6H * 0 0 GTGGTTGATATTTTTCATGGTATTGATAAA * +HWI-EAS91_1_306UPAAXX 0 phiX 4635 255 28M8H * 0 0 GCTTTGCGTGACTATTTTCGTGATATTG * +HWI-EAS91_1_306UPAAXX 0 phiX 2738 255 36M * 0 0 GCCATGATGGTGGTTATTATACCGTCAAGGACTGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 2192 255 22M14H * 0 0 GTTCAGTTGTTGCATTGGAATA * +HWI-EAS91_1_306UPAAXX 16 phiX 2703 255 1H35M * 0 0 CCCGACTGCCTATGATGTTTATCCTTTGAATGGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2943 255 36M * 0 0 ATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3861 255 36M * 0 0 AATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGC * +HWI-EAS91_1_306UPAAXX 0 phiX 3093 255 36M * 0 0 GCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAG * +HWI-EAS91_1_306UPAAXX 0 phiX 3151 255 36M * 0 0 GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAG * +HWI-EAS91_1_306UPAAXX 0 phiX 1193 255 36M * 0 0 GTAGACATTTTTACTTTTTATGTCCCTCATCGTCAC * +HWI-EAS91_1_306UPAAXX 16 phiX 157 255 36M * 0 0 CGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCGC * +HWI-EAS91_1_306UPAAXX 0 phiX 4792 255 36M * 0 0 GGACACTTCCTACAGGTAGCGTTGACCCTAATTTTG * +HWI-EAS91_1_306UPAAXX 0 phiX 3849 255 36M * 0 0 GATACTTGGAACAATTTCTGGAAAGACGGTAAAGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 2743 255 1H35M * 0 0 GATGGTGGTTATTATACCGTCAAGGACTGTGTGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 3015 255 36M * 0 0 GCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACC * +HWI-EAS91_1_306UPAAXX 16 phiX 1091 255 36M * 0 0 ATTTCAACTACTCCGGTTATCGCTGGCGACTCCTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 798 255 1H35M * 0 0 GACGCAGAAGAAAACGTGCGTCAAAAATTACGTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 4866 255 36M * 0 0 CAAAATACGTGGCCTTATGGTTACAGTATGCCCATC * +HWI-EAS91_1_306UPAAXX 0 phiX 4404 255 36M * 0 0 GAACGCCCTCTTAAGGATATTCGCGATGAGTATAAT * +HWI-EAS91_1_306UPAAXX 16 phiX 1655 255 36M * 0 0 GTTATTTCTTCATTTGGAGGTAAAACCTCTTATGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 5162 255 36M * 0 0 GCTCACAATGACAAATCTGTCCACGGAGTGCTTAAT * +HWI-EAS91_1_306UPAAXX 16 phiX 1249 255 1H35M * 0 0 TAAGTTCATGAAGGATGGTGTTAATGCCACTCCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 3261 255 36M * 0 0 GCTGATAAAGGAAAGGATACTCGTGATTATCTTGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 3096 255 36M * 0 0 ATTCAAGGCTCTAATGTTCCTAACCCTGATGAGGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 2812 255 1H35M * 0 0 GTTTATGTTGGTTTCATGGTTTGGTCTAACTTTAC * +HWI-EAS91_1_306UPAAXX 0 phiX 81 255 30M6H * 0 0 GAATTACTACTGCTTGTTTACGAATTAAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 3459 255 36M * 0 0 GCTGGCATTCAGTCGGCGACTTCACGCCAGAATACG * +HWI-EAS91_1_306UPAAXX 0 phiX 789 255 35M1H * 0 0 GTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAA * +HWI-EAS91_1_306UPAAXX 0 phiX 3699 255 36M * 0 0 GCTGAGGTTGACTTAGTTCATCAGCAAACGCAGAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 2641 255 31M5H * 0 0 GCCGACCCTAAATTTTTTGCCTGTTTGGTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 305 255 36M * 0 0 GTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 3066 255 35M1H * 0 0 GGCATGGGTGATGCTGGTATTAAATCTGCCATTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 4428 255 36M * 0 0 GATGAGTATAATTACCCCAAAAAGAAAGGTATTAAG * +HWI-EAS91_1_306UPAAXX 16 phiX 1461 255 36M * 0 0 AAGATGATGCTCGTTATGGTTTCCGTTGCTGCCATC * +HWI-EAS91_1_306UPAAXX 16 phiX 4000 255 36M * 0 0 CTTCTGAATGTCACGCTGATTATTTTGACTTTGAGC * +HWI-EAS91_1_306UPAAXX 0 phiX 220 255 36M * 0 0 GACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTT * +HWI-EAS91_1_306UPAAXX 0 phiX 3194 255 33M3H * 0 0 GCAGGCTGGCACTTCTGCCGTTTCTGATAAGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 1266 255 32M4H * 0 0 GTGTTAATGCCACTCCTCTCCCGACTGTTAAC * +HWI-EAS91_1_306UPAAXX 16 phiX 4596 255 36M * 0 0 GCTGACGACCGATTAGAGGCGTTTTATGATAATCCC * +HWI-EAS91_1_306UPAAXX 16 phiX 1172 255 1H35M * 0 0 GGCCTTGCTATTGACTCTACTGTAGACATTTTTAC * +HWI-EAS91_1_306UPAAXX 16 phiX 636 255 36M * 0 0 GCTTATTATGTTCATCCCGTCAACATTCAAACGGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 2873 255 36M * 0 0 CGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCC * +HWI-EAS91_1_306UPAAXX 16 phiX 1014 255 36M * 0 0 AAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCC * +HWI-EAS91_1_306UPAAXX 0 phiX 2689 255 36M * 0 0 GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT * +HWI-EAS91_1_306UPAAXX 0 phiX 2148 255 36M * 0 0 GCGTACTTATTCGCCACCATGATTATTACCAGTGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 5191 255 35M1H * 0 0 GCTTAATCCAACTTACCAAGCTGGGTTACGACGCG * +HWI-EAS91_1_306UPAAXX 16 phiX 1590 255 36M * 0 0 AAGCTGCTTATGCTAATTTGCATACTGACCAAGAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 571 255 35M1H * 0 0 GTACGCTGTACTTTGTGGGATACCCTCGCTTTCCT * +HWI-EAS91_1_306UPAAXX 0 phiX 242 255 36M * 0 0 GGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 338 255 36M * 0 0 GTGGATTACTATCTGAGTCCGATGCTGTTCAACCAC * +HWI-EAS91_1_306UPAAXX 0 phiX 1112 255 30M6H * 0 0 GCTGGCGACTCCTTCGAGATGGACGCCGTT * +HWI-EAS91_1_306UPAAXX 16 phiX 1254 255 2H34M * 0 0 TCATGAAGGATGGTGTTAATGCCACTCCTCTCCC * +HWI-EAS91_1_306UPAAXX 0 phiX 3731 255 18M18H * 0 0 GAATCAGCGGTATGGCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2970 255 36M * 0 0 GCTGGTGGCGCCATGTCTAAATTTTTTGGAGGCGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 5151 255 36M * 0 0 GGGATGAAAATGCTCACAATGACAAATCTGTCCACG * +HWI-EAS91_1_306UPAAXX 16 phiX 348 255 36M * 0 0 ATCTGAGTCCGATGCTGTTCAACCACTAATAGGTAA * +HWI-EAS91_1_306UPAAXX 16 phiX 4888 255 1H35M * 0 0 ACAGTATGCCCATCGCAGTTCGCTACACGCAGGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 3972 255 33M3H * 0 0 GGCTTTTTTATGGTTCGTTCTTATTACCCTTCT * +HWI-EAS91_1_306UPAAXX 0 phiX 5033 255 36M * 0 0 GTCAGATATGGACCTTGCTGCTAAAGGTCTAGGAGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1552 255 1H35M * 0 0 GACGACTTCTACCACATCTATTGACATTATGGGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 1764 255 36M * 0 0 AAACGTCGTTAGGCCAGTTTTCTGGTCGTGTTCAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 1529 255 36M * 0 0 GAGACTGAGCTTTCTCGCCAAATGACGACTTCTACC * +HWI-EAS91_1_306UPAAXX 16 phiX 4950 255 36M * 0 0 CCTGTTGATGCTAAAGGTGAGCCGCTTAAAGCTACC * +HWI-EAS91_1_306UPAAXX 16 phiX 4484 255 34M2H * 0 0 GGAGGCCTCCACTATGAAATCGCGTAGAGGCTTT * +HWI-EAS91_1_306UPAAXX 16 phiX 4767 255 1H35M * 0 0 CATTTCCATGCGGTGCATTTTATGCGGACACTTCC * +HWI-EAS91_1_306UPAAXX 16 phiX 177 255 36M * 0 0 CTTTGCGACCTTTCGCCATCAACTAACGATTCTGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2577 255 36M * 0 0 GATGGATACATCTGTCAACGCCGCTAATCAGGTTGT * +HWI-EAS91_1_306UPAAXX 0 phiX 156 255 36M * 0 0 GCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCG * +HWI-EAS91_1_306UPAAXX 0 phiX 227 255 36M * 0 0 TGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGT * +HWI-EAS91_1_306UPAAXX 16 phiX 574 255 36M * 0 0 CGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 3021 255 36M * 0 0 GGTGGCATTCAAGGTGATGTGCTTGCTACCGATAAC * +HWI-EAS91_1_306UPAAXX 16 phiX 3731 255 36M * 0 0 GAATCAGCGGTATGGCTCTTCTCATATTGGCGCTAC * +HWI-EAS91_1_306UPAAXX 0 phiX 2436 255 36M * 0 0 TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2710 255 36M * 0 0 GCCTATGATGTTTATCCTTTGAATGGTCGCCATGAT * +HWI-EAS91_1_306UPAAXX 0 phiX 4228 255 28M8H * 0 0 TTCGTGATGAGTTTGTATCTGTTACTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 4606 255 34M2H * 0 0 GATTAGAGGCGTTTTATGATAATCCCAATGCTTT * +HWI-EAS91_1_306UPAAXX 16 phiX 2766 255 36M * 0 0 GGACTGTGTGACTATTGACGTCCTTCCCCGTACGCC * +HWI-EAS91_1_306UPAAXX 0 phiX 582 255 34M2H * 0 0 TTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTG * +HWI-EAS91_1_306UPAAXX 16 phiX 664 255 10H26M * 0 0 AAACGGCCTGTCTCATCATGGAAGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1144 255 36M * 0 0 CGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1514 255 36M * 0 0 GCTCCGCTTCCTCCTGAGACTGAGCTTTCTCGCCAA * +HWI-EAS91_1_306UPAAXX 0 phiX 4036 255 26M10H * 0 0 GTATCGAGGCTCTTAAACCTGCTATT * +HWI-EAS91_1_306UPAAXX 16 phiX 1657 255 36M * 0 0 TATTTCTTCATTTGGAGGTAAAACCTCTTATGACGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2071 255 36M * 0 0 GTATGTTTCTCCTGCTTATCACCTTCTTGAAGGCTT * +HWI-EAS91_1_306UPAAXX 0 phiX 1626 255 36M * 0 0 GTGATTACTTCATGCAGCGTTACCGTGATGTTATTT * +HWI-EAS91_1_306UPAAXX 0 phiX 3250 255 36M * 0 0 GCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 1982 255 36M * 0 0 GAAATTTCTATGAATGATGTTTTCCGTTCTGGTGAT * +HWI-EAS91_1_306UPAAXX 16 phiX 2217 255 36M * 0 0 AGGTTAAATTTAATGTGACCGTTTATCGCAATCTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3486 255 7H29M * 0 0 CAGAATACGAAAGACCAGGTATATGCACA * +HWI-EAS91_1_306UPAAXX 16 phiX 1690 255 36M * 0 0 CGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAA * +HWI-EAS91_1_306UPAAXX 16 phiX 3252 255 7H29M * 0 0 AAGTCTGCCGATGATAAAGGAAAGGATAC * +HWI-EAS91_1_306UPAAXX 16 phiX 1082 255 36M * 0 0 CTTATTACCATTTCAACTACTCCGGTTATCGCTGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 4282 255 36M * 0 0 GCTACAATGTGCTCCCCCAACTTGATATTAATAACA * +HWI-EAS91_1_306UPAAXX 0 phiX 4136 255 34M2H * 0 0 GCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAG * +HWI-EAS91_1_306UPAAXX 0 phiX 4414 255 36M * 0 0 TTAAGGATATTCGCGATGAGTATAATTACCCCAAAA * +HWI-EAS91_1_306UPAAXX 16 phiX 3988 255 36M * 0 0 GTTCTTATTACCCTTCTGAATGTCACGCTGATTATT * +HWI-EAS91_1_306UPAAXX 0 phiX 4203 255 36M * 0 0 GACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAG * +HWI-EAS91_1_306UPAAXX 16 phiX 4098 255 36M * 0 0 ATGCTTGGCTTCAATAAGCAGATGGATAACCGCATC * +HWI-EAS91_1_306UPAAXX 0 phiX 4307 255 35M1H * 0 0 TATTAATAACACTATAGACCACCGCCCCGAAGGGG * +HWI-EAS91_1_306UPAAXX 0 phiX 1521 255 35M1H * 0 0 TTCCTCCTGAGACTGAGCTTTCTCGCCAAATGACG * +HWI-EAS91_1_306UPAAXX 16 phiX 945 255 36M * 0 0 TAGGTGGTCAACAATTTTAATTGCAGGGGCTTCGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1575 255 36M * 0 0 ACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2689 255 36M * 0 0 GTTCCGACTACCCTCCCGACTGCCTATGATGTTTAT * +HWI-EAS91_1_306UPAAXX 0 phiX 2099 255 36M * 0 0 GAAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGT * +HWI-EAS91_1_306UPAAXX 16 phiX 524 255 36M * 0 0 TACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1252 255 36M * 0 0 GTTCATGAAGGATGGTGTTAATGCCACTCCTCTCCC * +HWI-EAS91_1_306UPAAXX 0 phiX 4916 255 33M3H * 0 0 GCAGGACGCTTTTTCACGTTCTGGTTGGTTGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 3828 255 29M7H * 0 0 GGTATTGATAAAGCTGTTGCCGATACTTG * +HWI-EAS91_1_306UPAAXX 16 phiX 3756 255 36M * 0 0 ATTGGCGCTACTGCAAAGGATATTTCTAATGTCGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 664 255 10H26M * 0 0 AAACGGCCTGTCTCATCATGGAAGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1116 255 36M * 0 0 GCGACTCCTTCGAGATGGACGCCGTTGGCGCTCTCC * +HWI-EAS91_1_306UPAAXX 16 phiX 3099 255 36M * 0 0 CAAGGCTCTAATGTTCCTAACCCTGATGGGGCCGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 3082 255 36M * 0 0 GTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTA * +HWI-EAS91_1_306UPAAXX 0 phiX 4221 255 27M9H * 0 0 TCTGACGTTCGTGATGAGTTTGTATCT * +HWI-EAS91_1_306UPAAXX 16 phiX 613 255 36M * 0 0 TTGAGTTTATTGCTGCCGTCATTGCTTATTATGTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 4936 255 36M * 0 0 CTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGC * +HWI-EAS91_1_306UPAAXX 0 phiX 289 255 36M * 0 0 TCACATTTTGTTCATGGTAGAGATTCTCTTGTTGAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4690 255 36M * 0 0 GCAAGGCTAATGATTCACACGCCGACTGCTATCAGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2547 255 31M5H * 0 0 TGGTAATGGTGGTTTTCTTCATTTCATTCAG * +HWI-EAS91_1_306UPAAXX 16 phiX 3520 255 36M * 0 0 AGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTC * +HWI-EAS91_1_306UPAAXX 16 phiX 3858 255 36M * 0 0 AACAATTTCTGGAAAGACGGTAAAGCTGATGGTATT * +HWI-EAS91_1_306UPAAXX 16 phiX 3344 255 36M * 0 0 TTCCTCTGCTGGTATGGTTGACGCCGGATTTGAGAA * +HWI-EAS91_1_306UPAAXX 0 phiX 4672 255 27M9H * 0 0 TTCTTGCTGCCGAGGGTCGCAAGGCTA * +HWI-EAS91_1_306UPAAXX 0 phiX 1346 255 31M5H * 0 0 GATACCAATAAAATCCCTAAGCATTTGTTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 1800 255 36M * 0 0 AGACCTATAAACATTCTGTGCCGCGTTTCTTTGTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 5077 255 36M * 0 0 GGAACAACTCACTAAAAACCAAGCTGTCGCTACTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2763 255 1H35M * 0 0 CAAGGACTGTGTGACTATTGACGTCCTTCCCCGTA * +HWI-EAS91_1_306UPAAXX 0 phiX 4282 255 36M * 0 0 GCTACAATGTGCTCCCCCAACTTGATATTAATAACA * +HWI-EAS91_1_306UPAAXX 0 phiX 4656 255 27M9H * 0 0 GATATTGGTCGTATGGTTCTTGCTGCC * +HWI-EAS91_1_306UPAAXX 0 phiX 4935 255 18M18H * 0 0 TCTGGTTGGTTGTGGCCT * +HWI-EAS91_1_306UPAAXX 0 phiX 1203 255 33M3H * 0 0 TTACTTTTTATGTCCCTCATCGTCACGTTTATG * +HWI-EAS91_1_306UPAAXX 16 phiX 5107 255 36M * 0 0 TACTTCCCAAGAAGCTGTTCAGAATCAGAATGAGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 5168 255 1H35M * 0 0 AATGACAAATCTGTCCACGGAGTGCTTAATCCAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 2956 255 36M * 0 0 TTGCTTCTGCTCTTGCTTGTGGCGCCATGTCTAAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 624 255 30M6H * 0 0 GCTGCCGTCATTGCTTATTATGTTCATCCC * +HWI-EAS91_1_306UPAAXX 16 phiX 1877 255 1H35M * 0 0 CCGCCTACTGCGACTAAAGAGATTCAGTACCTTAA * +HWI-EAS91_1_306UPAAXX 0 phiX 1214 255 36M * 0 0 GTCCCTCATCGTCACGTTTATGGTGAACAGTGGATT * +HWI-EAS91_1_306UPAAXX 0 phiX 558 255 27M9H * 0 0 GCTTGCGTTTATGGTACGCTGGACTTT * +HWI-EAS91_1_306UPAAXX 16 phiX 3629 255 36M * 0 0 TACTCAAGCTCAAACGGCTGGTCAGTATTTTACCAA * +HWI-EAS91_1_306UPAAXX 0 phiX 2254 255 35M1H * 0 0 GACCACTCGCGATTCAATCATGACTTCGTGATAAA * +HWI-EAS91_1_306UPAAXX 0 phiX 2479 255 36M * 0 0 GCACCTGTTTTACAGACACCTAAAGCTACATCGTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3001 255 36M * 0 0 GCGGTCAAAAAGCCGCCTCCGGTGGCATTCAAGGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 4667 255 35M1H * 0 0 TATGGTTCTTGCTGCCGAGGGTCGCAAGGCTAATG * +HWI-EAS91_1_306UPAAXX 16 phiX 3464 255 36M * 0 0 CATTCAGTCGGCGACTTCACGCCAGAATACGAAAGA * +HWI-EAS91_1_306UPAAXX 0 phiX 4911 255 35M1H * 0 0 TACACGCAGGACGCTTTTTCACGTTCTGGTTGGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 4592 255 29M7H * 0 0 GTTGGCTGACGACCGATTAGAGGCGTTTT * +HWI-EAS91_1_306UPAAXX 16 phiX 2222 255 36M * 0 0 AAATTTAATGTGAACGTTTATCGCAATCTGCCGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 646 255 35M1H * 0 0 TTCATCCCGTCAACATTCAAACGGCCTGTCTCATC * +HWI-EAS91_1_306UPAAXX 16 phiX 1364 255 36M * 0 0 AAGCATTTGTTTCAGGGTTATTTGAATATCTATAAC * +HWI-EAS91_1_306UPAAXX 16 phiX 1613 255 1H35M * 0 0 ACTGACCAAGAACGTGATTACTTCATGCAGCGTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 1045 255 35M1H * 0 0 TTCCCATCTTGGCTTCCTTGCTGGTCAGATTGGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 2885 255 33M3H * 0 0 TTATTAAAGAGATTATTTTTCTCCAGCCACTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 1588 255 36M * 0 0 GCAAGCTGCTTATGCTAATTTGCATACTGACCAAGA * +HWI-EAS91_1_306UPAAXX 0 phiX 339 255 36M * 0 0 TGGATTACTATCTGAGTCCGATGCTGTTCAACCACT * +HWI-EAS91_1_306UPAAXX 0 phiX 4937 255 36M * 0 0 TGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 4344 255 2H34M * 0 0 GAAAAATGGTTTTTAGAGAACGAGAAGACGGTTA * +HWI-EAS91_1_306UPAAXX 16 phiX 3674 255 36M * 0 0 CAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 4945 255 36M * 0 0 TGTGGCCTGTTGATGCTAAAGGTGAGCCGCTTAAAG * +HWI-EAS91_1_306UPAAXX 0 phiX 1946 255 36M * 0 0 GGCGACCCTGTTTTGTATGGCAACTTGCCGCCGCGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2662 255 32M4H * 0 0 TGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCC * +HWI-EAS91_1_306UPAAXX 0 phiX 3313 255 36M * 0 0 TTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCT * +HWI-EAS91_1_306UPAAXX 16 phiX 2827 255 3H33M * 0 0 ATGGTTTGGTCAAACTTTACCGCTACTAAATGC * +HWI-EAS91_1_306UPAAXX 0 phiX 727 255 36M * 0 0 GTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCT * +HWI-EAS91_1_306UPAAXX 16 phiX 555 255 36M * 0 0 GAGGCTTGCGTTTATGGTACGCTGGACTTTGTGGGA * +HWI-EAS91_1_306UPAAXX 0 phiX 485 255 36M * 0 0 TGATTTCGATTTTCTGACGAGTAACAAAGTTTGGAT * +HWI-EAS91_1_306UPAAXX 16 phiX 318 255 36M * 0 0 TGTTGACATTTTAAAAGAGCGTGGATTACTATCTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 910 255 36M * 0 0 TAAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGT * +HWI-EAS91_1_306UPAAXX 16 phiX 4936 255 36M * 0 0 CTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAGC * +HWI-EAS91_1_306UPAAXX 16 phiX 5005 255 36M * 0 0 TCTATGTGGCTAAATACGTTAACAAAAAGTCAGATA * +HWI-EAS91_1_306UPAAXX 0 phiX 1379 255 33M3H * 0 0 GGTTATTTGAATATCTATAACAACTATTTTAAA * +HWI-EAS91_1_306UPAAXX 0 phiX 3168 255 30M6H * 0 0 GGTAAAGGACTTCTTGAAGGTACGTTGCAG * +HWI-EAS91_1_306UPAAXX 0 phiX 2738 255 33M3H * 0 0 GCCATGATGGTGGTTATTATACCGTCAAGGACT * +HWI-EAS91_1_306UPAAXX 0 phiX 4099 255 36M * 0 0 TGCTTGGCTTCCATAAGCAGATGGATAACCGCATCA * +HWI-EAS91_1_306UPAAXX 0 phiX 2574 255 36M * 0 0 TCAGATGGATACATCTGTCAACGCCGCTAATCAGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2453 255 36M * 0 0 TCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTT * +HWI-EAS91_1_306UPAAXX 0 phiX 5179 255 36M * 0 0 TGTCCACGGAGTGCTTAATCCAACTTACCAAGCTGG * +HWI-EAS91_1_306UPAAXX 0 phiX 3778 255 30M6H * 0 0 TTTCTAATGTCGTCACTGATGCTGCTTCTG * +HWI-EAS91_1_306UPAAXX 16 phiX 1843 255 36M * 0 0 TGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCC * +HWI-EAS91_1_306UPAAXX 16 phiX 1082 255 36M * 0 0 CTTATTACCATTTCAACTACTCCGGTTATCGCTGGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1728 255 36M * 0 0 TCTGGGCATCTGGCTATGATGTTGATGGAACTGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 4637 255 36M * 0 0 TTTGCGTGACTATTTTCGTGATATTGTTCGTATGGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2225 255 36M * 0 0 TTTAATGTGACCGTTTATCGCAATCTGCCGACCACT * +HWI-EAS91_1_306UPAAXX 16 phiX 3368 255 36M * 0 0 CGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3311 255 36M * 0 0 GCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 5039 255 36M * 0 0 TATGGACCTTGCTGCTAAAGGTCTAGGAGCTAAAGA * +HWI-EAS91_1_306UPAAXX 0 phiX 2059 255 36M * 0 0 TTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCT * +HWI-EAS91_1_306UPAAXX 0 phiX 388 255 36M * 0 0 TCATGAGTCAAGTTACTGAACAATCCGTACGTTTCC * +HWI-EAS91_1_306UPAAXX 0 phiX 2754 255 36M * 0 0 TTATACCGTCAAGGACTGTGTGACTATTGACGTCCT * +HWI-EAS91_1_306UPAAXX 16 phiX 2128 255 36M * 0 0 TTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCA * +HWI-EAS91_1_306UPAAXX 0 phiX 154 255 36M * 0 0 TTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTT * +HWI-EAS91_1_306UPAAXX 16 phiX 3617 255 36M * 0 0 GCGCCAAATGCTTACTCAAGCTCAAACGGCTGGTCA * +HWI-EAS91_1_306UPAAXX 16 phiX 2728 255 36M * 0 0 TTGAATGGTCGCCATGATGGTGGTTATTATACCGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2775 255 36M * 0 0 GACTATTGACGTCCTTCCCCGTACGCCGGGCAATAA * +HWI-EAS91_1_306UPAAXX 0 phiX 4217 255 36M * 0 0 TGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTAC * +HWI-EAS91_1_306UPAAXX 0 phiX 4619 255 35M1H * 0 0 TTATGATAATCCCAATGCTTTGCGTGACTATTTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 411 255 35M1H * 0 0 TCCGTACGTTTCCAGACCGCTTTGGCCTCTATTAA * +HWI-EAS91_1_306UPAAXX 0 phiX 2730 255 35M1H * 0 0 GAATGGTCGCCATGATGGTGGTTATTATACCGTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 521 255 35M1H * 0 0 TGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTG * +HWI-EAS91_1_306UPAAXX 0 phiX 4260 255 36M * 0 0 TTAATGGATGAATTGGCACAATGCTACAATGTGCTC * +HWI-EAS91_1_306UPAAXX 16 phiX 1662 255 36M * 0 0 CTTCATTTGGAGGTAAAACCTCTTATGACGCTGACA * +HWI-EAS91_1_306UPAAXX 16 phiX 533 255 36M * 0 0 CTCTCGTGCTCGTCGCTGCGTTGAGGCTTGCGTTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 195 255 35M1H * 0 0 TCAACTAACGATTCTGTCAAAAACTGACGCGTTGG * +HWI-EAS91_1_306UPAAXX 0 phiX 2239 255 36M * 0 0 TTATCGCAATCTGCCGACCACTCGCGATTCAATCAT * +HWI-EAS91_1_306UPAAXX 0 phiX 1313 255 33M3H * 0 0 GACCATGCCGCTTTTCTTGGCACGATTAACCCT * +HWI-EAS91_1_306UPAAXX 16 phiX 1545 255 36M * 0 0 GCCAAATGACGACTTCTACCACATCTATTGACATTA * +HWI-EAS91_1_306UPAAXX 16 phiX 557 255 36M * 0 0 GGCTTGCGTTTATGGTACGCTGGACTTTGTGGGATA * +HWI-EAS91_1_306UPAAXX 0 phiX 1249 255 36M * 0 0 TAAGTTCATGAAGGATGGTGTTAATGCCACTCCTCT * +HWI-EAS91_1_306UPAAXX 0 phiX 4174 255 33M3H * 0 0 TTGAGTTCGATAATGGTGATATGTATGTTGACG * +HWI-EAS91_1_306UPAAXX 0 phiX 614 255 35M1H * 0 0 TGAGTTTATTGCTGCCGTCATTGCTTATTATGTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 206 255 36M * 0 0 TTCTGTCAAAAACTGACGCGTTGGATGAGGAGAAGT * +HWI-EAS91_1_306UPAAXX 16 phiX 4981 255 36M * 0 0 CTACCAGTTATATGGCTGTTGGTTTCTATGTGGCTA * +HWI-EAS91_1_306UPAAXX 0 phiX 1702 255 30M6H * 0 0 TCCTTTACTTGTCATGCGCTCTAATCTCTG * +HWI-EAS91_1_306UPAAXX 0 phiX 2321 255 35M1H * 0 0 TAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 4184 255 35M1H * 0 0 TAATGGTGATATGTATGTTTACGTCCATAAGGCTG * +HWI-EAS91_1_306UPAAXX 0 phiX 4088 255 35M1H * 0 0 TCAATCCCCAATGCTTGGCTTCCATAAGCAGATGG * +HWI-EAS91_1_306UPAAXX 0 phiX 900 255 36M * 0 0 TGCGAGGTACTAAAGGCAAGCGTAAAGGCGCTCGTC * +HWI-EAS91_1_306UPAAXX 16 phiX 1155 255 36M * 0 0 TTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTA * +HWI-EAS91_1_306UPAAXX 16 phiX 3587 255 36M * 0 0 TTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCA * +HWI-EAS91_1_306UPAAXX 16 phiX 3787 255 36M * 0 0 TCGTCACTGATGCTGCTTCTGGTGTGGTTGATATTT * +HWI-EAS91_1_306UPAAXX 0 phiX 3834 255 35M1H * 0 0 GATAAAGCTGTTGCCGATACTTGGAACAATTTCTG * +HWI-EAS91_1_306UPAAXX 0 phiX 989 255 36M * 0 0 TGAGGATAAATTATGTCTAATATTCAAACTGGCGCC * +HWI-EAS91_1_306UPAAXX 0 phiX 5358 255 29M7H * 0 0 ATAAAAATGATTGGCGTATCCAACCTGCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3712 255 36M * 0 0 TAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCT * +HWI-EAS91_1_306UPAAXX 0 phiX 1207 255 36M * 0 0 TTTTTATGTCCCTCATCGTCACGTTTATGGTGAACA * +HWI-EAS91_1_306UPAAXX 16 phiX 4300 255 15H21M * 0 0 AACTTGATATTAATAACACTA * +HWI-EAS91_1_306UPAAXX 0 phiX 2116 255 36M * 0 0 TCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGT * +HWI-EAS91_1_306UPAAXX 16 phiX 660 255 36M * 0 0 ATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAA * +HWI-EAS91_1_306UPAAXX 0 phiX 1807 255 31M5H * 0 0 TAAACATTCTGTGCCGCGTTTCTTTGTTCCT * +HWI-EAS91_1_306UPAAXX 16 phiX 1536 255 36M * 0 0 AGCTTTCTCGCCAAATGACGACTTCTACCACATCTA * +HWI-EAS91_1_306UPAAXX 16 phiX 2112 255 1H35M * 0 0 TCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAA * +HWI-EAS91_1_306UPAAXX 16 phiX 2816 255 36M * 0 0 ATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTA * +HWI-EAS91_1_306UPAAXX 0 phiX 5176 255 36M * 0 0 ATCTGTCCACGGAGTGCTTAATCCAACTTACCAAGC * +HWI-EAS91_1_306UPAAXX 16 phiX 3472 255 36M * 0 0 CGGCGACTTCACGCCAGAATACGAAAGACCAGGTAT * +HWI-EAS91_1_306UPAAXX 16 phiX 1948 255 36M * 0 0 CGACCCTGTTTTGTATGGCAACTTGCCGCCGCGTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 2212 255 35M1H * 0 0 TAGTCAGGTTAAATTTAATGTGACCGTTTATCGCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3817 255 35M1H * 0 0 ATATTTTTCATGGTATTGATAAAGCTGTTGCCGAT * +HWI-EAS91_1_306UPAAXX 16 phiX 3563 255 36M * 0 0 GTCTATTATGGAAAACACCAATCTTTCCAAGCAACA * +HWI-EAS91_1_306UPAAXX 16 phiX 4198 255 1H35M * 0 0 ATGTTGACGGCCATAAGGCTGCTTCTGACGTTCGT * +HWI-EAS91_1_306UPAAXX 16 phiX 2907 255 1H35M * 0 0 CCAGCCACTTAAGTGAGGTGATTTATGTTTGGTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 2843 255 35M1H * 0 0 TTACCGCTACTAAATGCCGCGGATTGGTTTCGCTG * +HWI-EAS91_1_306UPAAXX 0 phiX 4374 255 31M5H * 0 0 GTTACGCAGTTTTGCCGCAAGCTGGCTGCTG * +HWI-EAS91_1_306UPAAXX 16 phiX 424 255 2H24M10H * 0 0 AGACCGCCTTGGCCTCTATTAAGC * +HWI-EAS91_1_306UPAAXX 16 phiX 1940 255 1H35M * 0 0 ATTGCTGGCGACCCTGTTTTGTATGGCAACTTGCC * +HWI-EAS91_1_306UPAAXX 16 phiX 5073 255 36M * 0 0 GAATGGAACAACTCACTAAAAACCAAGCTGTCGCTA * +HWI-EAS91_1_306UPAAXX 0 phiX 4434 255 36M * 0 0 TATAATTACCCCAAAAAGAAAGGTATTAAGGATGAG * +HWI-EAS91_1_306UPAAXX 16 phiX 1274 255 1H35M * 0 0 GCCACTCCTCTCCCGACTGTTAACACTACTGGTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 4440 255 36M * 0 0 TACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3920 255 36M * 0 0 GTCAGGATTGACACCCTCCCAATTGTATGTTTTCAT * +HWI-EAS91_1_306UPAAXX 16 phiX 4587 255 1H35M * 0 0 CTCACGTTGGCTGACGACCGATTAGAGGCGTTTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 3730 255 24M12H * 0 0 AGAATCAGCGGTATGGCTCTTCTC * +HWI-EAS91_1_306UPAAXX 0 phiX 1707 255 36M * 0 0 TACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 1582 255 36M * 0 0 GGGTCTGCAAGCTGCTTATGCTAATTTGCATACTGA * +HWI-EAS91_1_306UPAAXX 16 phiX 1588 255 36M * 0 0 GCAAGCTGCTTATGCTAATTTGCATACTGACCAAGA * +HWI-EAS91_1_306UPAAXX 0 phiX 1180 255 34M2H * 0 0 TATTGACTCTACTGTAGACATTTTTACTTTTTAT * +HWI-EAS91_1_306UPAAXX 16 phiX 2698 255 36M * 0 0 ACCCTCCCGACTGCCTATGATGTTTATCCTTTGAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 3167 255 36M * 0 0 TGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGG * +HWI-EAS91_1_306UPAAXX 16 phiX 2498 255 11H25M * 0 0 CTAAAGCTACATCGTCAACGTTATA * +HWI-EAS91_1_306UPAAXX 16 phiX 2289 255 36M * 0 0 AGATTGAGTGTGAGGTTATAACGCCGAAGCGGTAAA * +HWI-EAS91_1_306UPAAXX 16 phiX 441 255 36M * 0 0 ATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTA * +HWI-EAS91_1_306UPAAXX 0 phiX 1012 255 36M * 0 0 TCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 161 255 36M * 0 0 GCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATC * +HWI-EAS91_1_306UPAAXX 16 phiX 1165 255 1H35M * 0 0 GCGTCGTGGCCTTGCTATTGACTCTACTGTAGACA * +HWI-EAS91_1_306UPAAXX 16 phiX 5015 255 5H31M * 0 0 TAAATACGTTAACAAAAAGTCAGATATGGAC * +HWI-EAS91_1_306UPAAXX 16 phiX 2286 255 36M * 0 0 AAAAGATTGAGTGTGAGGTTATAACGCCGAAGCGGT * +HWI-EAS91_1_306UPAAXX 16 phiX 801 255 32M4H * 0 0 GCAGAAGAAAACGTGCGTCAAAAATTACGTGC * +HWI-EAS91_1_306UPAAXX 0 phiX 1587 255 36M * 0 0 TGCAAGCTGCTTATGCTAATTTGCATACTGACCAAG * +HWI-EAS91_1_306UPAAXX 0 phiX 4578 255 36M * 0 0 TTTGACACTCTCACGTTGGCTGACGACCGATTAGAG * +HWI-EAS91_1_306UPAAXX 16 phiX 3570 255 36M * 0 0 ATGGAAAACACCAATCTTTCCAAGCAACAGCAGGTT * +HWI-EAS91_1_306UPAAXX 16 phiX 496 255 36M * 0 0 TTCTGACGAGTAACAAAGTTTGGATTGCTACTGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 441 255 36M * 0 0 ATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTA * +HWI-EAS91_1_306UPAAXX 16 phiX 4754 255 30M6H * 0 0 TAATGGCCGTCTTCATTTCCATGCGGTGCA * +HWI-EAS91_1_306UPAAXX 0 phiX 4235 255 35M1H * 0 0 TGAGTTTGTATCTGTTACTGAGAAGTTAATGGATG * +HWI-EAS91_1_306UPAAXX 16 phiX 2293 255 36M * 0 0 TGAGTGTGAGGTTATAACGCCGAAGCGGTAAAAATT * +HWI-EAS91_1_306UPAAXX 16 phiX 1579 255 1H35M * 0 0 TATGGGTCTGCAAGCTGCTTATGCTAATTTGCATA * +HWI-EAS91_1_306UPAAXX 0 phiX 3332 255 31M5H * 0 0 TGGTGCTGATGCTTCCTCTGCTGGTATGGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 4132 255 36M * 0 0 TCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGC * +HWI-EAS91_1_306UPAAXX 0 phiX 4775 255 36M * 0 0 TGCGGTGCATTTTATGCGGACACTTCCTACAGGTAG * +HWI-EAS91_1_306UPAAXX 16 phiX 657 255 18H18M * 0 0 AACATTCAAACGGCCTGT * +HWI-EAS91_1_306UPAAXX 16 phiX 1 255 4H32M * 0 0 GAGTTTTATCGCTTCCATGACGCAGAAGTTAA * +HWI-EAS91_1_306UPAAXX 16 phiX 54 255 36M * 0 0 AGTCGAAAAATTATCTTGATAAAGCAGGAATTACTA * +HWI-EAS91_1_306UPAAXX 16 phiX 680 255 1H35M * 0 0 CATGGAAGGCGCTGAATTTACGGAAAACATTATTA * +HWI-EAS91_1_306UPAAXX 0 phiX 231 255 36M * 0 0 TGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGT * +HWI-EAS91_1_306UPAAXX 0 phiX 4192 255 36M * 0 0 ATATGTATGTTGACGGCCATAAGGCTGCTTCTGACG * +HWI-EAS91_1_306UPAAXX 16 phiX 1580 255 36M * 0 0 ATGGGTCTGCAAGCTGCTTATGCTAATTTGCATACT * +HWI-EAS91_1_306UPAAXX 16 phiX 611 255 36M * 0 0 TGTTGAGTTTATTGCTGCCGTCATTGCTTATTATGT * +HWI-EAS91_1_306UPAAXX 16 phiX 4532 255 1H35M * 0 0 GATGAATGCAATGCGACAGGCTCATGCTGATGGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 638 255 30M6H * 0 0 TTATTATGTTCATCCCGTCAACATTCAAAC * +HWI-EAS91_1_306UPAAXX 0 phiX 2847 255 4H28M4H * 0 0 CGCTACTAAATTCCGCGGATTGGTTTCG * +HWI-EAS91_1_306UPAAXX 16 phiX 1957 255 36M * 0 0 TTTGTATGGCAACTTGCCGCCGCGTGAAATTTCTAT * +HWI-EAS91_1_306UPAAXX 16 phiX 2728 255 36M * 0 0 TTGAATGGTCGCCATGATGGTGGTTATTATACCGTC * +HWI-EAS91_1_306UPAAXX 0 phiX 3979 255 36M * 0 0 TTATGGTTCGTTCTTATTACCCTTCTGAATGTCACG * +HWI-EAS91_1_306UPAAXX 16 phiX 540 255 1H35M * 0 0 GCTCGTCGCTGCGTTGAGGCTTGCGTTTATGGTAC * +HWI-EAS91_1_306UPAAXX 16 phiX 1852 255 36M * 0 0 GTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGC * +HWI-EAS91_1_306UPAAXX 16 phiX 4684 255 36M * 0 0 AGGGTCGCAAGGCTAATGATTCACACGCCGACTGCT * +HWI-EAS91_1_306UPAAXX 0 phiX 3690 255 32M4H * 0 0 AAGGTTAGTGCTGAGGTTGACTTAGTTCATCA * +HWI-EAS91_1_306UPAAXX 0 phiX 584 255 36M * 0 0 TGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTT * +HWI-EAS91_1_306UPAAXX 16 phiX 3852 255 1H35M * 0 0 ACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 2857 255 35M1H * 0 0 TGCCGCGGATTGGTTTCGCTGAATCAGGTTATTAA * +HWI-EAS91_1_306UPAAXX 0 phiX 3782 255 26M10H * 0 0 TAATGTCGTCACTGATGCTGCTTCTG * +HWI-EAS91_1_306UPAAXX 0 phiX 1728 255 36M * 0 0 TCTGGGCATCTGGCTATGATGTTGATGGAACTGACC * +HWI-EAS91_1_306UPAAXX 0 phiX 4658 255 35M1H * 0 0 TATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCA * +HWI-EAS91_1_306UPAAXX 16 phiX 1721 255 36M * 0 0 TCTAATCTCTGGGCATCTGGCTATGATGTTGATGGA * +HWI-EAS91_1_306UPAAXX 0 phiX 1954 255 36M * 0 0 TGTTTTGTATGGCAACTTGCCGCCGCGTGAAATTTC * +HWI-EAS91_1_306UPAAXX 0 phiX 962 255 36M * 0 0 TAATTGCAGGGGCTTCGGCCCCTTACTTGAGGATAA * +HWI-EAS91_1_306UPAAXX 16 phiX 2175 255 36M * 0 0 ACCAGTGTTTCCAGTCCGTTCAGTTGTTGCAGTGGA * +HWI-EAS91_1_306UPAAXX 0 phiX 2442 255 36M * 0 0 TAAGCTGGTTCTCACTTCTGTTACTCCAGCTTCTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 5126 255 1H35M * 0 0 CAGAATCAGAATGAGCCGCAACTTCGGGATGAAAA * +HWI-EAS91_1_306UPAAXX 16 phiX 5206 255 36M * 0 0 CCAAGCTGGGTTACGACGCGACGCCGTTCAACCAGA * +HWI-EAS91_1_306UPAAXX 0 phiX 2879 255 36M * 0 0 ATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCAC * +HWI-EAS91_1_306UPAAXX 0 phiX 2004 255 36M * 0 0 TCCGTTCTGGTGATTCGTCTAAGAAGTTTAAGATTG * +HWI-EAS91_1_306UPAAXX 0 phiX 2154 255 36M * 0 0 TTATTCGCCACCATGATTATGACCAGTGTTTCCAGT * +HWI-EAS91_1_306UPAAXX 0 phiX 1093 255 35M1H * 0 0 TTCAACTACTCCGGTTATCGCTGGCGACTCCTTCG * +HWI-EAS91_1_306UPAAXX 16 phiX 3127 255 36M * 0 0 AGGCCGCCCCTAGTTTTGTTTCTGGTGCTATGGCTA * +HWI-EAS91_1_306UPAAXX 16 phiX 3544 255 36M * 0 0 AGTCTACTGCTCGCGTTGCGTCTATTATGGAAAACA * +HWI-EAS91_1_306UPAAXX 0 phiX 2508 255 31M5H * 0 0 ATCGTCAACGTTATATTTTGATAGTTTGACG * +HWI-EAS91_1_306UPAAXX 16 phiX 3098 255 12H24M * 0 0 TCAAGGCTCTAATGTCCCTAACCC * +HWI-EAS91_1_306UPAAXX 16 phiX 3600 255 36M * 0 0 CAGGTTTCCGAGATTATGCGCCAAATGCTTACTCAA * +HWI-EAS91_1_306UPAAXX 16 phiX 1734 255 36M * 0 0 CATCTGGCTATGATGTTGATGGAACTGACCAAACGT * +HWI-EAS91_1_306UPAAXX 0 phiX 2655 255 33M3H * 0 0 TTTTGCCTGTTTGGTTCGCTTTGAGTCTTCTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 2934 255 36M * 0 0 TTTGGTGCTATTGCTGGCGGTATTGCTTCTGCTCTT * +HWI-EAS91_1_306UPAAXX 0 phiX 1522 255 36M * 0 0 TCCTCCTGAGACTGAGCTTTCTCGCCAAATGACGAC * +HWI-EAS91_1_306UPAAXX 16 phiX 4063 255 36M * 0 0 AGGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAA * +HWI-EAS91_1_306UPAAXX 0 phiX 3395 255 36M * 0 0 TAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA * +HWI-EAS91_1_306UPAAXX 0 phiX 409 255 36M * 0 0 AATCCGTACGTTTCCAGACCGCTTTGGCCTCTATTA * +HWI-EAS91_1_306UPAAXX 16 phiX 1867 255 36M * 0 0 TGTTCGTTTTCCGCCTACTGCGACTAAAGAGATTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 3780 255 33M3H * 0 0 TCTAATGTCGTCACTGATGCTGCTTCTGGTGTG * +HWI-EAS91_1_306UPAAXX 0 phiX 3982 255 36M * 0 0 TGGTTCGTTCTTATTACCCTTCTGAATGTCACGCTG * +HWI-EAS91_1_306UPAAXX 16 phiX 2815 255 36M * 0 0 TATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 1242 255 36M * 0 0 AGTGGATTAAGTTCATGAAGGATGGTGTTAATGCCA * +HWI-EAS91_1_306UPAAXX 16 phiX 4659 255 1H35M * 0 0 ATTGGTCGTATGGTTCTTGCTGCCGAGGGTCGCAA * +HWI-EAS91_1_306UPAAXX 0 phiX 2436 255 36M * 0 0 TTCTGATAAGCTGGTTCTCACTTCTGTTACTCCAGC * +HWI-EAS91_1_306UPAAXX 0 phiX 527 255 35M1H * 0 0 TGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCTT * +HWI-EAS91_1_306UPAAXX 16 phiX 4817 255 36M * 0 0 CCCTAATTTGGGTCGTCGGGTACGCAATCGCCGCCA * +HWI-EAS91_1_306UPAAXX 0 phiX 2100 255 36M * 0 0 AAGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTG * +HWI-EAS91_1_306UPAAXX 16 phiX 2762 255 36M * 0 0 TCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTA * +HWI-EAS91_1_306UPAAXX 0 phiX 4955 255 36M * 0 0 TGATGCTAAAGGTGAGCCGCTTAAAGCTACCAGTTA * +HWI-EAS91_1_306UPAAXX 16 phiX 3761 255 36M * 0 0 CGCTACTGCAAAGGATATTTCTAATGTCGTCACTGA * +HWI-EAS91_1_306UPAAXX 16 phiX 4499 255 36M * 0 0 GAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGAT * +HWI-EAS91_1_306UPAAXX 16 phiX 4039 255 36M * 0 0 TCGAGGCTCTTAAACCTGCTATTGAGGCTTGTGGCA * +HWI-EAS91_1_306UPAAXX 16 phiX 4788 255 36M * 0 0 ATGCGGACACTTCCTACAGGTAGCGTTGACCCTAAT * +HWI-EAS91_1_306UPAAXX 0 phiX 1002 255 36M * 0 0 TGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGC * +HWI-EAS91_1_306UPAAXX 16 phiX 4381 255 36M * 0 0 AGTTTTGCCGCAAGCTGGCTGCTGAACGCCCTCTTA * +HWI-EAS91_1_306UPAAXX 16 phiX 4256 255 36M * 0 0 GAAGTTAATGGATGAATTGGCACAATGCTACAATGT * +HWI-EAS91_1_306UPAAXX 16 phiX 10 255 1H35M * 0 0 CGCTTCCATGACGCAGAAGTTAACACTTTCGGATA * +HWI-EAS91_1_306UPAAXX 16 phiX 1579 255 36M * 0 0 TATGGGTCTGCAAGCTGCTTATGCTAATTTGCATAC * +HWI-EAS91_1_306UPAAXX 0 phiX 989 255 30M6H * 0 0 TGAGGATAAATTATGTCTAATATTCAAACT * +HWI-EAS91_1_306UPAAXX 0 phiX 3862 255 36M * 0 0 ATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCT * +HWI-EAS91_1_306UPAAXX 0 phiX 3278 255 36M * 0 0 TACTCGTGATTATCTTGCTGCTGCATTTCCTGAGCT * +HWI-EAS91_1_306UPAAXX 0 phiX 349 255 36M * 0 0 TCTGAGTCCGATGCTGTTCAACCACTAATAGGTAAG * +HWI-EAS91_1_306UPAAXX 0 phiX 4608 255 36M * 0 0 TTAGAGGCGTTTTATGATAATCCCAATGCTTTGCGT * +HWI-EAS91_1_306UPAAXX 0 phiX 3808 255 35M1H * 0 0 GTGTGGTTGATATTTTTCATGGTATTGATAAAGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 4753 255 31M5H * 0 0 CTAATGGCCGTCTTCATTTCCATGCGGTGCA * +HWI-EAS91_1_306UPAAXX 16 phiX 286 255 36M * 0 0 GAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTT * +HWI-EAS91_1_306UPAAXX 0 phiX 2850 255 36M * 0 0 TACTAAATGCCGCGGATTGGTTTCGCTGAATCAGGT * +HWI-EAS91_1_306UPAAXX 16 phiX 680 255 1H35M * 0 0 CATGGAAGGCGCTGAATTTACGGAAAACATTATTA * +HWI-EAS91_1_306UPAAXX 16 phiX 4740 255 36M * 0 0 GAGTATGGTACAGCTAATGGCCGTCTTCATTTCCAT * +HWI-EAS91_1_306UPAAXX 0 phiX 4655 255 25M11H * 0 0 TGATATTGGTCGTATGGTTCTTGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 2467 255 1H35M * 0 0 CCAGCTTCTTCGGCACCTGTTTTACAGACACCTAA * +HWI-EAS91_1_306UPAAXX 0 phiX 320 255 34M2H * 0 0 TTGACATTTTAAAAGAGCGTGGATTACTATCTGA * +HWI-EAS91_1_306UPAAXX 0 phiX 1180 255 34M2H * 0 0 TATTGACTCTACTGTAGACATTTTTACTTTTTAT * +HWI-EAS91_1_306UPAAXX 16 phiX 521 255 36M * 0 0 TGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGA * +HWI-EAS91_1_306UPAAXX 16 phiX 333 255 36M * 0 0 AGAGCGTGGATTACTATCTGAGTCCGATGCTGTTCA * +HWI-EAS91_1_306UPAAXX 0 phiX 2756 255 36M * 0 0 ATACCGTCAAGGACTGTGTGACTATTGACGTCCTTC * +HWI-EAS91_1_306UPAAXX 16 phiX 4957 255 36M * 0 0 ATGCTAAAGGTGAGCCGCTTAAAGCTACCAGTTATA * +HWI-EAS91_1_306UPAAXX 16 phiX 72 255 36M * 0 0 ATAAAGCAGGAATTACTACTGCTTGTTTACGAATTA * +HWI-EAS91_1_306UPAAXX 16 phiX 4249 255 36M * 0 0 TTACTGAGAAGTTAATGGATGAATTGGCACAATGCT * +HWI-EAS91_1_306UPAAXX 16 phiX 2592 255 36M * 0 0 CAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGA * +HWI-EAS91_1_306UPAAXX 16 phiX 1974 255 36M * 0 0 CGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTT * +HWI-EAS91_1_306UPAAXX 16 phiX 3540 255 36M * 0 0 AAGGAGTCTACTGCTCGCGTTGCGTCTATTATGGAA * +HWI-EAS91_1_306UPAAXX 16 phiX 4130 255 36M * 0 0 CATCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTAT * diff -r 8d149264b777 -r efdb6fb5de34 test-data/lastz_wrapper_out3.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/lastz_wrapper_out3.tabular Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,26 @@ +phiX 1164 1165 + 5386 HWI-EAS91_1_306UPAAXX:6:1:112:1280 26 27 + 36 G T GTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTG GTTGGCGCTCTCCGTCTTTCTCCATTTCGTCGTG +phiX 2490 2491 + 5386 HWI-EAS91_1_306UPAAXX:6:1:486:822 10 11 - 36 C A ACCTGTTTTACAGACACCTAAAGCTACATCGTCAAC ACCTGTTTTAAAGACACCTAAAGCTACATCGTCAAC +phiX 2205 2206 + 5386 HWI-EAS91_1_306UPAAXX:6:1:217:737 14 15 + 36 G T GTTCAGTTGTTGCAGTGGAATA GTTCAGTTGTTGCATTGGAATA +phiX 2173 2174 + 5386 HWI-EAS91_1_306UPAAXX:6:1:259:1389 26 27 + 36 G T GCGTACTTATTCGCCACCATGATTATGACCAGTGTT GCGTACTTATTCGCCACCATGATTATTACCAGTGTT +phiX 578 579 + 5386 HWI-EAS91_1_306UPAAXX:6:1:317:1411 8 9 + 36 G T GTACGCTGGACTTTGTGGGATACCCTCGCTTTCCT GTACGCTGTACTTTGTGGGATACCCTCGCTTTCCT +phiX 2992 2993 + 5386 HWI-EAS91_1_306UPAAXX:6:1:458:1629 23 24 + 36 G T GCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGT GCTGGTGGCGCCATGTCTAAATTTTTTGGAGGCGGT +phiX 4783 4784 + 5386 HWI-EAS91_1_306UPAAXX:6:1:646:59 18 19 - 36 C T CATTTCCATGCGGTGCACTTTATGCGGACACTTCC CATTTCCATGCGGTGCATTTTATGCGGACACTTCC +phiX 1649 1650 + 5386 HWI-EAS91_1_306UPAAXX:6:1:295:694 24 25 + 36 A G GTGATTACTTCATGCAGCGTTACCATGATGTTATTT GTGATTACTTCATGCAGCGTTACCGTGATGTTATTT +phiX 1995 1996 + 5386 HWI-EAS91_1_306UPAAXX:6:1:590:331 14 15 + 36 G T GAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGAT GAAATTTCTATGAATGATGTTTTCCGTTCTGGTGAT +phiX 3261 3262 + 5386 HWI-EAS91_1_306UPAAXX:6:1:221:1238 17 18 - 36 C A AAGTCTGCCGCTGATAAAGGAAAGGATAC AAGTCTGCCGATGATAAAGGAAAGGATAC +phiX 4109 4110 + 5386 HWI-EAS91_1_306UPAAXX:6:1:478:252 12 13 - 36 C A ATGCTTGGCTTCCATAAGCAGATGGATAACCGCATC ATGCTTGGCTTCAATAAGCAGATGGATAACCGCATC +phiX 3126 3127 + 5386 HWI-EAS91_1_306UPAAXX:6:1:589:96 28 29 - 36 A G CAAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCC CAAGGCTCTAATGTTCCTAACCCTGATGGGGCCGCC +phiX 2569 2570 + 5386 HWI-EAS91_1_306UPAAXX:6:1:1472:716 23 24 + 36 G T TGGTAATGGTGGTTTTCTTCATTGCATTCAG TGGTAATGGTGGTTTTCTTCATTTCATTCAG +phiX 2972 2973 + 5386 HWI-EAS91_1_306UPAAXX:6:1:836:1204 17 18 + 36 G T TTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAAT TTGCTTCTGCTCTTGCTTGTGGCGCCATGTCTAAAT +phiX 2234 2235 + 5386 HWI-EAS91_1_306UPAAXX:6:1:172:1412 13 14 - 36 C A AAATTTAATGTGACCGTTTATCGCAATCTGCCGACC AAATTTAATGTGAACGTTTATCGCAATCTGCCGACC +phiX 2902 2903 + 5386 HWI-EAS91_1_306UPAAXX:6:1:540:1415 18 19 + 36 G T TTATTAAAGAGATTATTTGTCTCCAGCCACTTA TTATTAAAGAGATTATTTTTCTCCAGCCACTTA +phiX 2837 2838 + 5386 HWI-EAS91_1_306UPAAXX:6:1:253:1162 14 15 - 36 T A ATGGTTTGGTCTAACTTTACCGCTACTAAATGC ATGGTTTGGTCAAACTTTACCGCTACTAAATGC +phiX 4662 4663 + 5386 HWI-EAS91_1_306UPAAXX:6:1:828:754 26 27 + 36 G T TTTGCGTGACTATTTTCGTGATATTGGTCGTATGGT TTTGCGTGACTATTTTCGTGATATTGTTCGTATGGT +phiX 4202 4203 + 5386 HWI-EAS91_1_306UPAAXX:6:1:891:1437 19 20 + 36 G T TAATGGTGATATGTATGTTGACGGCCATAAGGCTG TAATGGTGATATGTATGTTTACGTCCATAAGGCTG +phiX 4206 4207 + 5386 HWI-EAS91_1_306UPAAXX:6:1:891:1437 23 24 + 36 G T TAATGGTGATATGTATGTTGACGGCCATAAGGCTG TAATGGTGATATGTATGTTTACGTCCATAAGGCTG +phiX 430 431 + 5386 HWI-EAS91_1_306UPAAXX:6:1:203:667 9 10 - 36 T C AGACCGCTTTGGCCTCTATTAAGC AGACCGCCTTGGCCTCTATTAAGC +phiX 4783 4784 + 5386 HWI-EAS91_1_306UPAAXX:6:1:1566:499 9 10 + 36 C T TGCGGTGCACTTTATGCGGACACTTCCTACAGGTAG TGCGGTGCATTTTATGCGGACACTTCCTACAGGTAG +phiX 2857 2858 + 5386 HWI-EAS91_1_306UPAAXX:6:1:578:971 15 16 + 36 G T CGCTACTAAATGCCGCGGATTGGTTTCG CGCTACTAAATTCCGCGGATTGGTTTCG +phiX 3112 3113 + 5386 HWI-EAS91_1_306UPAAXX:6:1:1721:1800 27 28 - 36 T C TCAAGGCTCTAATGTTCCTAACCC TCAAGGCTCTAATGTCCCTAACCC +phiX 4825 4826 + 5386 HWI-EAS91_1_306UPAAXX:6:1:815:1640 9 10 - 36 T G CCCTAATTTTGGTCGTCGGGTACGCAATCGCCGCCA CCCTAATTTGGGTCGTCGGGTACGCAATCGCCGCCA +phiX 4517 4518 + 5386 HWI-EAS91_1_306UPAAXX:6:1:1485:741 19 20 - 36 G A GAAATCGCGTAGAGGCTTTGCTATTCAGCGTTTGAT GAAATCGCGTAGAGGCTTTACTATTCAGCGTTTGAT diff -r 8d149264b777 -r efdb6fb5de34 test-data/phiX.fa --- a/test-data/phiX.fa Wed Nov 25 14:06:28 2009 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,79 +0,0 @@ ->phiX -GAGTTTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAAAAATTATCTT -GATAAAGCAGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGAGAAA -ATTCGACCTATCCTTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATCAACTAACGATTCTG -TCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTA -GATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTACTATC -TGAGTCCGATGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCAAGTTACTGAACAATCCGTACGTT -TCCAGACCGCTTTGGCCTCTATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTAACCGAAGATGATTT -CGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCT -TGCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATTGCTGCCG -TCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTAC -GGAAAACATTATTAATGGCGTCGAGCGTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCTTGCGTGTA -CGCGCAGGAAACACTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCGGAAGGAG -TGATGTAATGTCTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACT -AAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGTAGGTGGTCAACAATTTTAATTGCAGGGGCTTCGGC -CCCTTACTTGAGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCA -TCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGAC -TCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTA -CTGTAGACATTTTTACTTTTTATGTCCCTCATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAA -GGATGGTGTTAATGCCACTCCTCTCCCGACTGTTAACACTACTGGTTATATTGACCATGCCGCTTTTCTT -GGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACA -ACTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCTAATGAGCTTAATCAAGATGATGC -TCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCTGAGACTGAGCTT -TCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGC -ATACTGACCAAGAACGTGATTACTTCATGCAGCGTTACCATGATGTTATTTCTTCATTTGGAGGTAAAAC -CTCTTATGACGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTT -GATGGAACTGACCAAACGTCGTTAGGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAACATTCTGTGC -CGCGTTTCTTTGTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGAC -TAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTG -TATGGCAACTTGCCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGT -TTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCTTCTTGA -AGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGAT -TATGACCAGTGTTTCCAGTCCGTTCAGTTGTTGCAGTGGAATAGTCAGGTTAAATTTAATGTGACCGTTT -ATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAAC -GCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGC -TTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGT -TCTCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTA -TATTTTGATAGTTTGACGGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTG -TCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGATGCCGACCCTAAATTTTTTGC -CTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACTGCCTATGATGTTTATCCTTTG -AATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGC -CGGGCAATAACGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTACTAAATGCCGCGGATTGGT -TTCGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTG -CTATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAA -AGCCGCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCATGGGTGATGCT -GGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTG -GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGA -TAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTGATTAT -CTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGG -TTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA -GATGCAAAATGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGAC -CAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGTCTATTA -TGGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCAAATGCTTACTCAAGCTCA -AACGGCTGGTCAGTATTTTACCAATGACCAAATCAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGAC -TTAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCTCTTCTCATATTGGCGCTACTGCAAAGGATATTT -CTAATGTCGTCACTGATGCTGCTTCTGGTGTGGTTGATATTTTTCATGGTATTGATAAAGCTGTTGCCGA -TACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGAAATAACCG -TCAGGATTGACACCCTCCCAATTGTATGTTTTCATGCCTCCAAATCTTGGAGGCTTTTTTATGGTTCGTT -CTTATTACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTAT -TGAGGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGC -ATCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATAATGGTGATATGTATG -TTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGA -ATTGGCACAATGCTACAATGTGCTCCCCCAACTTGATATTAATAACACTATAGACCACCGCCCCGAAGGG -GACGAAAAATGGTTTTTAGAGAACGAGAAGACGGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCC -CTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATT -GCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTGCTATTCAGCGTTTGATGAATGCAATGCGACAG -GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAGGCGTTTT -ATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCG -CAAGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGC -CGTCTTCATTTCCATGCGGTGCACTTTATGCGGACACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTC -GTCGGGTACGCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT -CGCAGTTCGCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAG -CCGCTTAAAGCTACCAGTTATATGGCTGTTGGTTTCTATGTGGCTAAATACGTTAACAAAAAGTCAGATA -TGGACCTTGCTGCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCACTAAAAACCAAGCTGTCGCTACT -TCCCAAGAAGCTGTTCAGAATCAGAATGAGCCGCAACTTCGGGATGAAAATGCTCACAATGACAAATCTG -TCCACGGAGTGCTTAATCCAACTTACCAAGCTGGGTTACGACGCGACGCCGTTCAACCAGATATTGAAGC -AGAACGCAAAAAGAGAGATGAGATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTTTGGCGGCGCAACC -TGTGACGACAAATCTGCTCAAATTTATGCGCGCTTCGATAAAAATGATTGGCGTATCCAACCTGCA - diff -r 8d149264b777 -r efdb6fb5de34 test-data/phiX.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/phiX.fasta Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,79 @@ +>phiX +GAGTTTTATCGCTTCCATGACGCAGAAGTTAACACTTTCGGATATTTCTGATGAGTCGAAAAATTATCTT +GATAAAGCAGGAATTACTACTGCTTGTTTACGAATTAAATCGAAGTGGACTGCTGGCGGAAAATGAGAAA +ATTCGACCTATCCTTGCGCAGCTCGAGAAGCTCTTACTTTGCGACCTTTCGCCATCAACTAACGATTCTG +TCAAAAACTGACGCGTTGGATGAGGAGAAGTGGCTTAATATGCTTGGCACGTTCGTCAAGGACTGGTTTA +GATATGAGTCACATTTTGTTCATGGTAGAGATTCTCTTGTTGACATTTTAAAAGAGCGTGGATTACTATC +TGAGTCCGATGCTGTTCAACCACTAATAGGTAAGAAATCATGAGTCAAGTTACTGAACAATCCGTACGTT +TCCAGACCGCTTTGGCCTCTATTAAGCTCATTCAGGCTTCTGCCGTTTTGGATTTAACCGAAGATGATTT +CGATTTTCTGACGAGTAACAAAGTTTGGATTGCTACTGACCGCTCTCGTGCTCGTCGCTGCGTTGAGGCT +TGCGTTTATGGTACGCTGGACTTTGTGGGATACCCTCGCTTTCCTGCTCCTGTTGAGTTTATTGCTGCCG +TCATTGCTTATTATGTTCATCCCGTCAACATTCAAACGGCCTGTCTCATCATGGAAGGCGCTGAATTTAC +GGAAAACATTATTAATGGCGTCGAGCGTCCGGTTAAAGCCGCTGAATTGTTCGCGTTTACCTTGCGTGTA +CGCGCAGGAAACACTGACGTTCTTACTGACGCAGAAGAAAACGTGCGTCAAAAATTACGTGCGGAAGGAG +TGATGTAATGTCTAAAGGTAAAAAACGTTCTGGCGCTCGCCCTGGTCGTCCGCAGCCGTTGCGAGGTACT +AAAGGCAAGCGTAAAGGCGCTCGTCTTTGGTATGTAGGTGGTCAACAATTTTAATTGCAGGGGCTTCGGC +CCCTTACTTGAGGATAAATTATGTCTAATATTCAAACTGGCGCCGAGCGTATGCCGCATGACCTTTCCCA +TCTTGGCTTCCTTGCTGGTCAGATTGGTCGTCTTATTACCATTTCAACTACTCCGGTTATCGCTGGCGAC +TCCTTCGAGATGGACGCCGTTGGCGCTCTCCGTCTTTCTCCATTGCGTCGTGGCCTTGCTATTGACTCTA +CTGTAGACATTTTTACTTTTTATGTCCCTCATCGTCACGTTTATGGTGAACAGTGGATTAAGTTCATGAA +GGATGGTGTTAATGCCACTCCTCTCCCGACTGTTAACACTACTGGTTATATTGACCATGCCGCTTTTCTT +GGCACGATTAACCCTGATACCAATAAAATCCCTAAGCATTTGTTTCAGGGTTATTTGAATATCTATAACA +ACTATTTTAAAGCGCCGTGGATGCCTGACCGTACCGAGGCTAACCCTAATGAGCTTAATCAAGATGATGC +TCGTTATGGTTTCCGTTGCTGCCATCTCAAAAACATTTGGACTGCTCCGCTTCCTCCTGAGACTGAGCTT +TCTCGCCAAATGACGACTTCTACCACATCTATTGACATTATGGGTCTGCAAGCTGCTTATGCTAATTTGC +ATACTGACCAAGAACGTGATTACTTCATGCAGCGTTACCATGATGTTATTTCTTCATTTGGAGGTAAAAC +CTCTTATGACGCTGACAACCGTCCTTTACTTGTCATGCGCTCTAATCTCTGGGCATCTGGCTATGATGTT +GATGGAACTGACCAAACGTCGTTAGGCCAGTTTTCTGGTCGTGTTCAACAGACCTATAAACATTCTGTGC +CGCGTTTCTTTGTTCCTGAGCATGGCACTATGTTTACTCTTGCGCTTGTTCGTTTTCCGCCTACTGCGAC +TAAAGAGATTCAGTACCTTAACGCTAAAGGTGCTTTGACTTATACCGATATTGCTGGCGACCCTGTTTTG +TATGGCAACTTGCCGCCGCGTGAAATTTCTATGAAGGATGTTTTCCGTTCTGGTGATTCGTCTAAGAAGT +TTAAGATTGCTGAGGGTCAGTGGTATCGTTATGCGCCTTCGTATGTTTCTCCTGCTTATCACCTTCTTGA +AGGCTTCCCATTCATTCAGGAACCGCCTTCTGGTGATTTGCAAGAACGCGTACTTATTCGCCACCATGAT +TATGACCAGTGTTTCCAGTCCGTTCAGTTGTTGCAGTGGAATAGTCAGGTTAAATTTAATGTGACCGTTT +ATCGCAATCTGCCGACCACTCGCGATTCAATCATGACTTCGTGATAAAAGATTGAGTGTGAGGTTATAAC +GCCGAAGCGGTAAAAATTTTAATTTTTGCCGCTGAGGGGTTGACCAAGCGAAGCGCGGTAGGTTTTCTGC +TTAGGAGTTTAATCATGTTTCAGACTTTTATTTCTCGCCATAATTCAAACTTTTTTTCTGATAAGCTGGT +TCTCACTTCTGTTACTCCAGCTTCTTCGGCACCTGTTTTACAGACACCTAAAGCTACATCGTCAACGTTA +TATTTTGATAGTTTGACGGTTAATGCTGGTAATGGTGGTTTTCTTCATTGCATTCAGATGGATACATCTG +TCAACGCCGCTAATCAGGTTGTTTCTGTTGGTGCTGATATTGCTTTTGATGCCGACCCTAAATTTTTTGC +CTGTTTGGTTCGCTTTGAGTCTTCTTCGGTTCCGACTACCCTCCCGACTGCCTATGATGTTTATCCTTTG +AATGGTCGCCATGATGGTGGTTATTATACCGTCAAGGACTGTGTGACTATTGACGTCCTTCCCCGTACGC +CGGGCAATAACGTTTATGTTGGTTTCATGGTTTGGTCTAACTTTACCGCTACTAAATGCCGCGGATTGGT +TTCGCTGAATCAGGTTATTAAAGAGATTATTTGTCTCCAGCCACTTAAGTGAGGTGATTTATGTTTGGTG +CTATTGCTGGCGGTATTGCTTCTGCTCTTGCTGGTGGCGCCATGTCTAAATTGTTTGGAGGCGGTCAAAA +AGCCGCCTCCGGTGGCATTCAAGGTGATGTGCTTGCTACCGATAACAATACTGTAGGCATGGGTGATGCT +GGTATTAAATCTGCCATTCAAGGCTCTAATGTTCCTAACCCTGATGAGGCCGCCCCTAGTTTTGTTTCTG +GTGCTATGGCTAAAGCTGGTAAAGGACTTCTTGAAGGTACGTTGCAGGCTGGCACTTCTGCCGTTTCTGA +TAAGTTGCTTGATTTGGTTGGACTTGGTGGCAAGTCTGCCGCTGATAAAGGAAAGGATACTCGTGATTAT +CTTGCTGCTGCATTTCCTGAGCTTAATGCTTGGGAGCGTGCTGGTGCTGATGCTTCCTCTGCTGGTATGG +TTGACGCCGGATTTGAGAATCAAAAAGAGCTTACTAAAATGCAACTGGACAATCAGAAAGAGATTGCCGA +GATGCAAAATGAGACTCAAAAAGAGATTGCTGGCATTCAGTCGGCGACTTCACGCCAGAATACGAAAGAC +CAGGTATATGCACAAAATGAGATGCTTGCTTATCAACAGAAGGAGTCTACTGCTCGCGTTGCGTCTATTA +TGGAAAACACCAATCTTTCCAAGCAACAGCAGGTTTCCGAGATTATGCGCCAAATGCTTACTCAAGCTCA +AACGGCTGGTCAGTATTTTACCAATGACCAAATCAAAGAAATGACTCGCAAGGTTAGTGCTGAGGTTGAC +TTAGTTCATCAGCAAACGCAGAATCAGCGGTATGGCTCTTCTCATATTGGCGCTACTGCAAAGGATATTT +CTAATGTCGTCACTGATGCTGCTTCTGGTGTGGTTGATATTTTTCATGGTATTGATAAAGCTGTTGCCGA +TACTTGGAACAATTTCTGGAAAGACGGTAAAGCTGATGGTATTGGCTCTAATTTGTCTAGGAAATAACCG +TCAGGATTGACACCCTCCCAATTGTATGTTTTCATGCCTCCAAATCTTGGAGGCTTTTTTATGGTTCGTT +CTTATTACCCTTCTGAATGTCACGCTGATTATTTTGACTTTGAGCGTATCGAGGCTCTTAAACCTGCTAT +TGAGGCTTGTGGCATTTCTACTCTTTCTCAATCCCCAATGCTTGGCTTCCATAAGCAGATGGATAACCGC +ATCAAGCTCTTGGAAGAGATTCTGTCTTTTCGTATGCAGGGCGTTGAGTTCGATAATGGTGATATGTATG +TTGACGGCCATAAGGCTGCTTCTGACGTTCGTGATGAGTTTGTATCTGTTACTGAGAAGTTAATGGATGA +ATTGGCACAATGCTACAATGTGCTCCCCCAACTTGATATTAATAACACTATAGACCACCGCCCCGAAGGG +GACGAAAAATGGTTTTTAGAGAACGAGAAGACGGTTACGCAGTTTTGCCGCAAGCTGGCTGCTGAACGCC +CTCTTAAGGATATTCGCGATGAGTATAATTACCCCAAAAAGAAAGGTATTAAGGATGAGTGTTCAAGATT +GCTGGAGGCCTCCACTATGAAATCGCGTAGAGGCTTTGCTATTCAGCGTTTGATGAATGCAATGCGACAG +GCTCATGCTGATGGTTGGTTTATCGTTTTTGACACTCTCACGTTGGCTGACGACCGATTAGAGGCGTTTT +ATGATAATCCCAATGCTTTGCGTGACTATTTTCGTGATATTGGTCGTATGGTTCTTGCTGCCGAGGGTCG +CAAGGCTAATGATTCACACGCCGACTGCTATCAGTATTTTTGTGTGCCTGAGTATGGTACAGCTAATGGC +CGTCTTCATTTCCATGCGGTGCACTTTATGCGGACACTTCCTACAGGTAGCGTTGACCCTAATTTTGGTC +GTCGGGTACGCAATCGCCGCCAGTTAAATAGCTTGCAAAATACGTGGCCTTATGGTTACAGTATGCCCAT +CGCAGTTCGCTACACGCAGGACGCTTTTTCACGTTCTGGTTGGTTGTGGCCTGTTGATGCTAAAGGTGAG +CCGCTTAAAGCTACCAGTTATATGGCTGTTGGTTTCTATGTGGCTAAATACGTTAACAAAAAGTCAGATA +TGGACCTTGCTGCTAAAGGTCTAGGAGCTAAAGAATGGAACAACTCACTAAAAACCAAGCTGTCGCTACT +TCCCAAGAAGCTGTTCAGAATCAGAATGAGCCGCAACTTCGGGATGAAAATGCTCACAATGACAAATCTG +TCCACGGAGTGCTTAATCCAACTTACCAAGCTGGGTTACGACGCGACGCCGTTCAACCAGATATTGAAGC +AGAACGCAAAAAGAGAGATGAGATTGAGGCTGGGAAAAGTTACTGTAGCCGACGTTTTGGCGGCGCAACC +TGTGACGACAAATCTGCTCAAATTTATGCGCGCTTCGATAAAAATGATTGGCGTATCCAACCTGCA + diff -r 8d149264b777 -r efdb6fb5de34 tool-data/lastz_seqs.loc --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/lastz_seqs.loc Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,2 @@ +#ref path +hg19 /depot/data2/galaxy/hg19/seq/hg19.2bit diff -r 8d149264b777 -r efdb6fb5de34 tool_conf.xml.sample --- a/tool_conf.xml.sample Wed Nov 25 14:06:28 2009 -0500 +++ b/tool_conf.xml.sample Fri Nov 27 10:53:50 2009 -0500 @@ -187,7 +187,7 @@ <tool file="solid_tools/solid_qual_boxplot.xml" /> </section> <section name="NGS: Mapping" id="solexa_tools"> -  + <tool file="sr_mapping/lastz_wrapper.xml" /> <tool file="sr_mapping/bowtie_wrapper.xml" /> <tool file="sr_mapping/bwa_wrapper.xml" /> <tool file="metag_tools/megablast_wrapper.xml" /> diff -r 8d149264b777 -r efdb6fb5de34 tools/sr_mapping/bwa_wrapper.xml --- a/tools/sr_mapping/bwa_wrapper.xml Wed Nov 25 14:06:28 2009 -0500 +++ b/tools/sr_mapping/bwa_wrapper.xml Fri Nov 27 10:53:50 2009 -0500 @@ -169,7 +169,7 @@ <test> <param name="solidSolexa" value="solid" /> <param name="refGenomeSource" value="history" /> - <param name="ownFile" value="phiX.fa" /> + <param name="ownFile" value="phiX.fasta" /> <param name="sPaired" value="single" /> <param name="input1" value="bwa_wrapper_in0.fastq" ftype="fastqsanger" /> <param name="source_select" value="pre_set" /> diff -r 8d149264b777 -r efdb6fb5de34 tools/sr_mapping/lastz_wrapper.py --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tools/sr_mapping/lastz_wrapper.py Fri Nov 27 10:53:50 2009 -0500 @@ -0,0 +1,133 @@ +#! /usr/bin/python + +""" + --lastzSeqsFileDir: Directory of local lastz_seqs.loc file +""" +import optparse, os, subprocess, shutil, sys, tempfile, threading +from Queue import Queue + +from galaxy import eggs +import pkg_resources +pkg_resources.require( 'bx-python' ) +from bx.seq.twobit import * + +def stop_err( msg ): + sys.stderr.write( "%s\n" % msg ) + sys.exit() + +class LastzJobRunner( object ): + """ + Lastz job runner backed by a pool of "num_threads" worker threads. FIFO scheduling + """ + def __init__( self, num_threads, commands ): + """Start the job runner with "num_threads" worker threads""" + # start workers + self.queue = Queue() + for command in commands: + self.queue.put( command ) + self.threads = [] + for i in range( num_threads ): + worker = threading.Thread( target=self.run_next ) + worker.start() + self.threads.append( worker ) + def run_next( self ): + """Run the next command, waiting until one is available if necessary""" + while not self.queue.empty(): + command = self.queue.get() + self.run_job( command ) + def run_job( self, command ): + try: + proc = subprocess.Popen( args=command, shell=True ) + sts = os.waitpid( proc.pid, 0 ) + except Exception, e: + stop_err( "Error executing command (%s) - %s" % ( str( command ), str( e ) ) ) + +def __main__(): + #Parse Command Line + parser = optparse.OptionParser() + parser.add_option( '', '--ref_name', dest='ref_name', help='' ) + parser.add_option( '', '--ref_source', dest='ref_source', help='' ) + parser.add_option( '', '--ref_sequences', dest='ref_sequences', help='Number of sequences in the reference dataset' ) + parser.add_option( '', '--source_select', dest='source_select', help='' ) + parser.add_option( '', '--out_format', dest='out_format', help='' ) + parser.add_option( '', '--input1', dest='input1', help='' ) + parser.add_option( '', '--input2', dest='input2', help='' ) + parser.add_option( '', '--pre_set_options', dest='pre_set_options', help='' ) + parser.add_option( '', '--strand', dest='strand', help='' ) + parser.add_option( '', '--seed', dest='seed', help='' ) + parser.add_option( '', '--transition', dest='transition', help='' ) + parser.add_option( '', '--gfextend', dest='gfextend', help='' ) + parser.add_option( '', '--nogfextend', dest='nogfextend', help='' ) + parser.add_option( '', '--chain', dest='chain', help='' ) + parser.add_option( '', '--nochain', dest='nochain', help='' ) + parser.add_option( '', '--gapped', dest='gapped', help='' ) + parser.add_option( '', '--nogapped', dest='nogapped', help='' ) + parser.add_option( '', '--O', dest='O', help='' ) + parser.add_option( '', '--E', dest='E', help='' ) + parser.add_option( '', '--X', dest='X', help='' ) + parser.add_option( '', '--Y', dest='Y', help='' ) + parser.add_option( '', '--K', dest='K', help='' ) + parser.add_option( '', '--L', dest='L', help='' ) + parser.add_option( '', '--entropy', dest='entropy', help='' ) + parser.add_option( '', '--identity_min', dest='identity_min', help='' ) + parser.add_option( '', '--identity_max', dest='identity_max', help='' ) + parser.add_option( '', '--coverage', dest='coverage', help='' ) + parser.add_option( '', '--format', dest='format', help='' ) + parser.add_option( '', '--output', dest='output', help='The output file' ) + parser.add_option( '', '--num_threads', dest='num_threads', help='' ) + parser.add_option( '', '--lastzSeqsFileDir', dest='lastzSeqsFileDir', help='Directory of local lastz_seqs.loc file' ) + ( options, args ) = parser.parse_args() + + commands = [] + if options.ref_name != 'None': + ref_name = '%s::' % options.ref_name + else: + ref_name = '' + # Prepare for commonly-used preset options + if options.source_select == 'pre_set': + set_options = '--%s' % options.pre_set_options + # Prepare for user-specified options + else: + set_options = '%s %s --%s --%s --%s --%s O=%s E=%s X=%s Y=%s K=%s L=%s %s' % \ + ( options.gfextend, options.chain, options.gapped, options.strand, + options.seed, options.transition, options.O, options.E, options.X, + options.Y, options.K, options.L, options.entropy ) + # Specify input2 and add [fullnames] modifier if output format is diffs + if options.format == 'diffs': + input2 = '%s[fullnames]' % options.input2 + else: + input2 = options.input2 + if options.format == 'tabular': + # Change output format to general if it's tabular and add field names for tabular output + format = 'general' + tabular_fields = ':score,name1,strand1,size1,start1,zstart1,end1,length1,text1,name2,strand2,size2,start2,zstart2,end2,start2+,zstart2+,end2+,length2,text2,diff,cigar,identity,coverage,gaprate,diagonal,shingle' + else: + format = options.format + tabular_fields = '' + if options.ref_source == 'history': + # Reference is a fasta dataset from the history, so split job across number of + # sequences in the dataset + try: + error_msg = "The reference dataset is missing metadata, click the pencil icon in the history item and 'auto-detect' the metadata attributes." + ref_sequences = int( options.ref_sequences ) + if ref_sequences < 1: + stop_err( error_msg ) + except: + stop_err( error_msg ) + for seq in range( ref_sequences ): + command = 'lastz %s%s %s %s --ambiguousn --nolaj --identity=%s..%s --coverage=%s --format=%s%s >> %s' % \ + ( ref_name, options.input1, input2, set_options, options.identity_min, + options.identity_max, options.coverage, format, tabular_fields, options.output ) + commands.append( command ) + else: + # Reference is a locally cached 2bit file, split job across number of chroms in 2bit file + tbf = TwoBitFile( open( options.input1, 'r' ) ) + for chrom in tbf.keys(): + command = 'lastz %s%s/%s %s %s --ambiguousn --nolaj --identity=%s..%s --coverage=%s --format=%s%s >> %s' % \ + ( ref_name, options.input1, chrom, input2, set_options, options.identity_min, + options.identity_max, options.coverage, format, tabular_fields, options.output ) + commands.append( command ) + tbf.close() + job_runner = LastzJobRunner( int( options.num_threads ), commands ) + +if __name__=="__main__": __main__() diff -r 8d149264b777 -r efdb6fb5de34 tools/sr_mapping/lastz_wrapper.xml --- a/tools/sr_mapping/lastz_wrapper.xml Wed Nov 25 14:06:28 2009 -0500 +++ b/tools/sr_mapping/lastz_wrapper.xml Fri Nov 27 10:53:50 2009 -0500 @@ -1,124 +1,183 @@ -<tool id="lastz_wrapper_1" name="Lastz" version="1.0.0"> - <description> map short reads against reference sequence</description> - <command> - #if ($params.source_select=="pre_set" and $seq_name.how_to_name=="No" and $out_format.value=="diffs") #lastz $input1 ${input2}[fullnames] --${params.pre_set_options} --ambiguousn --nolaj --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="pre_set" and $seq_name.how_to_name=="Yes" and $out_format.value=="diffs") #lastz $seq_name.ref_name::$input1 ${input2}[fullnames] --${params.pre_set_options} --ambiguousn --nolaj --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="full" and $seq_name.how_to_name=="No" and $out_format.value=="diffs") #lastz $input1 ${input2}[fullnames] $params.strand $params.seed $params.transition O=$params.O E=$params.E X=$params.X Y=$params.Y K=$params.K L=$params.L $params.entropy --ambiguousn --nolaj --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="full" and $seq_name.how_to_name=="Yes" and $out_format.value=="diffs") #lastz $seq_name.ref_name::$input1 ${input2}[fullnames] $params.strand $params.seed $params.transition O=$params.O E=$params.E X=$params.X Y=$params.Y K=$params.K L=$params.L $params.entropy --ambiguousn --nolaj --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="pre_set" and $seq_name.how_to_name=="No" and $out_format.value=="maf") #lastz $input1 read::${input2} --${params.pre_set_options} --ambiguousn --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="pre_set" and $seq_name.how_to_name=="Yes" and $out_format.value=="maf") #lastz $seq_name.ref_name::$input1 read::${input2} --${params.pre_set_options} --ambiguousn --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="full" and $seq_name.how_to_name=="No" and $out_format.value=="maf") #lastz $input1 read::${input2} $params.strand $params.seed $params.transition O=$params.O E=$params.E X=$params.X Y=$params.Y K=$params.K L=$params.L $params.entropy --ambiguousn --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #elif ($params.source_select=="full" and $seq_name.how_to_name=="Yes" and $out_format.value=="maf") #lastz $seq_name.ref_name::$input1 read::${input2} $params.strand $params.seed $params.transition O=$params.O E=$params.E X=$params.X Y=$params.Y K=$params.K L=$params.L $params.entropy --ambiguousn --identity=${min_ident}..${max_ident} --census32=$output2 --coverage=$min_cvrg --format=$out_format > $output1 - #end if# - </command> - <inputs> - <param name="input2" format="fasta" type="data" label="Align sequencing reads" /> - <param name="input1" format="fasta" type="data" label="against reference" help="must be a single sequence"/> - <param name="out_format" type="select" label="Select output format"> - <option value="diffs">Polymorphisms</option> - <option value="maf-">Alignments in MAF format</option> - </param> - - <conditional name="params"> - <param name="source_select" type="select" label="Lastz settings to use" help="For most mapping needs use Commonly used settings. If you want full control use Full List"> - <option value="pre_set">Commonly used</option> - <option value="full">Full Parameter List</option> - </param> - <when value="pre_set"> - <param name="pre_set_options" type="select" label="Select mapping mode"> - <option value="yasra95short">Illumina-Solexa/AB-SOLiD 95% identity</option> - <option value="yasra85short">Illumina-Solexa/AB-SOLiD 85% identity</option> - <option value="yasra98">Roche-454 98% identity</option> - <option value="yasra95">Roche-454 95% identity</option> - <option value="yasra90">Roche-454 90% identity</option> - <option value="yasra85">Roche-454 85% identity</option> - <option value="yasra75">Roche-454 75% identity</option> - </param> - </when> - <when value="full"> - <param name="strand" type="select" label="Which strand to search?"> - <option value="--strand=both">Both</option> - <option value="--strand=plus">Search forward strand only (the one in the reference)</option> - <option value="--strand=minus">Search the reverse complement strand only (opposite of the reference)</option> - </param> - <param name="seed" type="select" label="Select seeding settings" help="allows you set word size and number of mismatches"> - <option value="--seed=12of19">Seed hits require a 19 bp word with matches in 12 specific positions</option> - <option value="--seed=14of22">Seed hits require a 22 bp word with matches in 14 specific positions</option> - </param> - <param name="transition" type="select" label="Select transition settings" help="affects the number of allowed transition substitutions"> - <option value="--transition">Allow one transition in each seed hit</option> - <option value="--transition2">Allow two transitions in a seed hit </option> - <option value="--notransition">Don't allow any transitions in seed hits</option> - </param> - <param name="gfextend" type="boolean" truevalue="--gfextend" falsevalue="--nogfextend " label="Perform gap-free extension of seed hits to HSPs (high scoring segment pairs)?" /> - <param name="chain" type="boolean" truevalue="--chain" falsevalue="--nochain" label="Perform chaining of HSPs?" /> - <param name="gapped" type="boolean" truevalue="--gapped" falsevalue="--nogapped" label="Perform gapped alignment (instead of gap-free)?" /> - <param name="O" type="integer" size="5" value="400" label="Gap opening penalty"/> - <param name="E" type="integer" size="5" value="30" label="Gap extension penalty"/> - <param name="X" type="integer" size="5" value="910" label="X-drop threshold "/> - <param name="Y" type="integer" size="5" value="9370" label="Y-drop threshold"/> - <param name="K" type="integer" size="5" value="3000" label="Set the threshold for HSPs (ungapped extensions scoring lower are discarded)"/> - <param name="L" type="integer" size="5" value="3000" label="Set the threshold for gapped alignments (gapped extensions scoring lower are discarded)"/> - <param name="entropy" type="boolean" truevalue="--entropy" falsevalue="--noentropy " label="Involve entropy when filtering HSPs?" /> - </when> - </conditional> - <conditional name="seq_name"> - <param name="how_to_name" type="select" label="Do you want to modify reference name?"> - <option value="No">No</option> - <option value="Yes">Yes</option> - </param> - <when value="Yes"> - <param name="ref_name" type="text" size="25" value="Type sequence name here" label="Enter name for the Reference sequence"/> - </when> - <when value="No" /> - </conditional> - <param name="min_ident" type="integer" size="3" value="0" label="Do not report matches below this identity (%)"/> - <param name="max_ident" type="integer" size="3" value="100" label="Do not report matches above this identity (%)"/> - <param name="min_cvrg" type="integer" size="3" value="0" label="Do not report matches that cover less than this fraction (%) of each read"/> - </inputs> +<tool id="lastz_wrapper_2" name="Lastz" version="1.0.0"> + <description> map short reads against reference sequence</description> + <command interpreter="python">lastz_wrapper.py +#if $seq_name.how_to_name=="Yes": +--ref_name=$seq_name.ref_name +#else: +--ref_name="None" +#end if +--ref_source=$source.ref_source --source_select=$params.source_select --out_format=$out_format.value --input1=$source.input1 --input2=$input2 +#if $source.ref_source=="history": +--ref_sequences=$input1.metadata.sequences +#else: +--ref_sequences="None" +#end if +#if $params.source_select=="pre_set": +--pre_set_options=${params.pre_set_options} --strand="None" --seed="None" --transition="None" --O="None" --E="None" --X="None" --Y="None" --K="None" --L="None" --entropy="None" +#else: +--pre_set_options="None" --strand=$params.strand --seed=$params.seed --transition=$params.transition --O=$params.O --E=$params.E --X=$params.X --Y=$params.Y --K=$params.K --L=$params.L --entropy=$params.entropy +#end if +--identity_min=$min_ident --identity_max=$max_ident --coverage=$min_cvrg --format=$out_format --output=$output1 --num_threads=$num_threads --lastzSeqsFileDir=${GALAXY_DATA_INDEX_DIR} + </command> + <inputs> + <param name="input2" format="fasta" type="data" label="Align sequencing reads in" /> + <conditional name="source"> + <param name="ref_source" type="select" label="Against reference sequences"> + <option value="cached">that are locally cached</option> + <option value="history">in your history</option> + </param> + <when value="cached"> + <param name="input1" type="select" label="Using reference genome" help="If your genome of interest is not listed, contact the Galaxy team"> + <options from_file="lastz_seqs.loc"> + <column name="value" index="1" /> + <column name="name" index="0" /> + </options> + </param> + </when> + <when value="history"> + <param name="input1" type="data" format="fasta" label="Select a reference dataset" help="must be a single sequence" /> + </when> + </conditional> + <param name="out_format" type="select" label="Output format"> + <option value="sam">SAM</option> + <option value="diffs">Polymorphisms</option> + <option value="tabular">Tabular</option> + </param> + <conditional name="params"> + <param name="source_select" type="select" label="Lastz settings to use" help="For most mapping needs use Commonly used settings. If you want full control use Full List"> + <option value="pre_set">Commonly used</option> + <option value="full">Full Parameter List</option>

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[hg] galaxy 3126: Added 'N' to the list of mask characters, as p...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/71b779fde315 changeset: 3126:71b779fde315 user: guru date: Mon Nov 30 11:56:58 2009 -0500 description: Added 'N' to the list of mask characters, as per Melissa's request. diffstat: tools/regVariation/maf_cpg_filter.py | 2 +- tools/regVariation/maf_cpg_filter.xml | 1 + tools/regVariation/quality_filter.py | 2 +- tools/regVariation/quality_filter.xml | 1 + 4 files changed, 4 insertions(+), 2 deletions(-) diffs (46 lines): diff -r a8234f4d7012 -r 71b779fde315 tools/regVariation/maf_cpg_filter.py --- a/tools/regVariation/maf_cpg_filter.py Mon Nov 30 09:35:21 2009 -0500 +++ b/tools/regVariation/maf_cpg_filter.py Mon Nov 30 11:56:58 2009 -0500 @@ -39,7 +39,7 @@ reader = bx.align.maf.Reader( open(inp_file, 'r') ) writer = bx.align.maf.Writer( open(out_file,'w') ) - mask_chr_dict = {0:'#', 1:'$', 2:'^', 3:'*', 4:'?'} + mask_chr_dict = {0:'#', 1:'$', 2:'^', 3:'*', 4:'?', 5:'N'} mask = mask_chr_dict[mask] if sitetype == "CpG": diff -r a8234f4d7012 -r 71b779fde315 tools/regVariation/maf_cpg_filter.xml --- a/tools/regVariation/maf_cpg_filter.xml Mon Nov 30 09:35:21 2009 -0500 +++ b/tools/regVariation/maf_cpg_filter.xml Mon Nov 30 11:56:58 2009 -0500 @@ -21,6 +21,7 @@ <option value="2">^</option> <option value="3">*</option> <option value="4">?</option> + <option value="5">N</option> </param> <conditional name="masksite"> <param name="type" size="5" type="select" label="Sites to be masked"> diff -r a8234f4d7012 -r 71b779fde315 tools/regVariation/quality_filter.py --- a/tools/regVariation/quality_filter.py Mon Nov 30 09:35:21 2009 -0500 +++ b/tools/regVariation/quality_filter.py Mon Nov 30 11:56:58 2009 -0500 @@ -100,7 +100,7 @@ stop_err( "No mask species selected, try again by selecting at least one species to mask." ) mask_chr_count = 0 - mask_chr_dict = {0:'#', 1:'$', 2:'^', 3:'*', 4:'?'} + mask_chr_dict = {0:'#', 1:'$', 2:'^', 3:'*', 4:'?', 5:'N'} mask_reg_dict = {0:'Current pos', 1:'Current+Downstream', 2:'Current+Upstream', 3:'Current+Both sides'} #ensure dbkey is present in the twobit loc file diff -r a8234f4d7012 -r 71b779fde315 tools/regVariation/quality_filter.xml --- a/tools/regVariation/quality_filter.xml Mon Nov 30 09:35:21 2009 -0500 +++ b/tools/regVariation/quality_filter.xml Mon Nov 30 11:56:58 2009 -0500 @@ -37,6 +37,7 @@ <option value="2">^</option> <option value="3">*</option> <option value="4">?</option> + <option value="5">N</option> </param> <conditional name="mask_region"> <param name="region" type="select" label="Mask region">

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[hg] galaxy 3125: Fix for request_events table migration script ...
by Greg Von Kuster 02 Dec '09

02 Dec '09

details: http://www.bx.psu.edu/hg/galaxy/rev/a8234f4d7012 changeset: 3125:a8234f4d7012 user: rc date: Mon Nov 30 09:35:21 2009 -0500 description: Fix for request_events table migration script for MySQL & sqlite diffstat: lib/galaxy/model/migrate/versions/0027_request_events.py | 5 +++-- 1 files changed, 3 insertions(+), 2 deletions(-) diffs (16 lines): diff -r 341d7c1c5c9a -r a8234f4d7012 lib/galaxy/model/migrate/versions/0027_request_events.py --- a/lib/galaxy/model/migrate/versions/0027_request_events.py Mon Nov 30 09:05:28 2009 -0500 +++ b/lib/galaxy/model/migrate/versions/0027_request_events.py Mon Nov 30 09:35:21 2009 -0500 @@ -73,9 +73,10 @@ "%s AS create_time," + \ "%s AS update_time," + \ "request.id AS request_id," + \ - "request.state AS state " + \ + "request.state AS state," + \ + "'%s' AS comment " + \ "FROM request;" - cmd = cmd % ( nextval('request_event'), localtimestamp(), localtimestamp() ) + cmd = cmd % ( nextval('request_event'), localtimestamp(), localtimestamp(), 'Imported from request table') db_session.execute( cmd ) # Delete the state column

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