Schema for xenoRefSeqAli
  Database: nomLeu2    Primary Table: xenoRefSeqAli    Row Count: 576,422   Data last updated: 2020-08-22
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 9smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 100int(10) unsigned Number of bases that match that aren't repeats
misMatches 10int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 2int(10) unsigned Number of inserts in query
qBaseInsert 85int(10) unsigned Number of bases inserted in query
tNumInsert 2int(10) unsigned Number of inserts in target
tBaseInsert 368514int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001316976varchar(255) Query sequence name
qSize 4711int(10) unsigned Query sequence size
qStart 2699int(10) unsigned Alignment start position in query
qEnd 2894int(10) unsigned Alignment end position in query
tName GL397339varchar(255) Target sequence name
tSize 10659195int(10) unsigned Target sequence size
tStart 1785259int(10) unsigned Alignment start position in target
tEnd 2153883int(10) unsigned Alignment end position in target
blockCount 3int(10) unsigned Number of blocks in alignment
blockSizes 31,24,55,longblob Size of each block
qStarts 2699,2779,2839,longblob Start of each block in query.
tStarts 1785259,1871047,2153828,longblob Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)
      nomLeu2.xenoMrna.qName (via xenoRefSeqAli.qName)
      nomLeu2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      nomLeu2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
910010002852368514++NM_001316976471126992894GL3973391065919517852592153883331,24,55,2699,2779,2839,1785259,1871047,2153828,
585323770000261106++NM_001093588242815741974ADFV0113442512603833092945983106,183,111,1574,1680,1863,33092,79263,94487,
58540130000261106++NM_001133903491517932197ADFV0113442512603833092946023106,183,115,1793,1899,2082,33092,79263,94487,
74156190038503325766++NM_001243999378822003225GL3972734096923516979832023924433,46,39,57,2200,2281,3020,3168,1697983,1790775,1825965,2023867,
585321780000261106++NM_001031398325116322031ADFV0113442512603833093945983105,183,111,1632,1737,1920,33093,79263,94487,
5853084800150261153++NM_001106133251617192125ADFV011344251260383309394602358,183,115,1719,1827,2010,33093,79263,94487,
585380230000261106++NM_001192999268618742277ADFV0113442512603833093946023105,183,115,1874,1979,2162,33093,79263,94487,
598813610026815253++NM_00136498317307881730GL3972724171252317936161799743424,553,224,73,788,812,1428,1657,1793616,1798893,1799446,1799670,
58510081420041762186++NM_0012435561439871413ADFV0113442512603873826751625177,864,21,45,43,87,266,1132,1159,1370,73826,74003,74867,74891,75119,
5859411350051893208++NM_001046198130041269ADFV011344251260387387775161633,82,864,21,13,63,4,39,123,989,1138,1206,73877,73921,74003,74867,75031,75098,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.