Schema for xenoRefSeqAli
  Database: panTro6    Primary Table: xenoRefSeqAli    Row Count: 231,421   Data last updated: 2018-07-31
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 826int(10) unsigned range Number of bases that match that aren't repeats
misMatches 191int(10) unsigned range Number of bases that don't match
repMatches 0int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 8int(10) unsigned range Number of inserts in target
tBaseInsert 6657int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001012836varchar(255) values Query sequence name
qSize 2146int(10) unsigned range Query sequence size
qStart 258int(10) unsigned range Alignment start position in query
qEnd 1275int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 224244399int(10) unsigned range Target sequence size
tStart 352int(10) unsigned range Alignment start position in target
tEnd 8026int(10) unsigned range Alignment end position in target
blockCount 9int(10) unsigned range Number of blocks in alignment
blockSizes 99,74,225,103,36,138,65,190...longblob   Size of each block
qStarts 258,357,431,656,759,795,933...longblob   Start of each block in query.
tStarts 224236373,224236938,2242379...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)
      panTro6.all_est.qName (via xenoRefSeqAli.qName)
      panTro6.all_mrna.qName (via xenoRefSeqAli.qName)
      panTro6.refGene.name (via xenoRefSeqAli.qName)
      panTro6.refSeqAli.qName (via xenoRefSeqAli.qName)
      panTro6.xenoMrna.qName (via xenoRefSeqAli.qName)
      panTro6.xenoRefFlat.name (via xenoRefSeqAli.qName)
      panTro6.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585826191000086657+-NM_00101283621462581275chr12242443993528026999,74,225,103,36,138,65,190,87,258,357,431,656,759,795,933,998,1188,224236373,224236938,224237974,224241841,224242025,224242502,224243164,224243630,224243960,
585828189000086657+-NM_00102062119991311148chr12242443993528026999,74,229,99,35,139,65,190,87,131,230,304,533,632,667,806,871,1061,224236373,224236938,224237974,224241845,224242025,224242501,224243164,224243630,224243960,
58550420400730386966+-NM_0010420831491181029chr12242443993528026998,27,132,16,72,33,54,189,87,18,117,189,367,441,570,687,753,942,224236373,224236938,224237972,224238156,224241872,224242523,224243164,224243631,224243960,
5857572060025496711+-NM_14346420431601177chr122424439935280261096,2,28,222,99,35,139,65,190,87,160,256,258,331,562,661,696,835,900,1090,224236373,224236474,224236937,224237972,224241845,224242025,224242501,224243164,224243630,224243960,
5859311130000910853+-NM_00103389220361101154chr1224244399352122491028,98,74,225,103,36,138,65,190,87,110,138,236,310,535,638,674,812,877,1067,224232150,224236374,224236938,224237974,224241841,224242025,224242502,224243164,224243630,224243960,
5859381060000910853+-NM_0011011082149941138chr1224244399352122491028,98,74,225,103,35,139,65,190,87,94,122,220,294,519,622,657,796,861,1051,224232150,224236374,224236938,224237974,224241841,224242025,224242501,224243164,224243630,224243960,
5859271200000910853+-NM_02802023471231170chr1224244399352122521031,98,74,225,103,36,138,65,190,87,123,154,252,326,551,654,690,828,893,1083,224232147,224236374,224236938,224237974,224241841,224242025,224242502,224243164,224243630,224243960,
5851065180000910853+-NM_001131288213811084chr1224244399352122881067,98,74,229,99,35,139,65,190,87,1,68,166,240,469,568,603,742,807,997,224232111,224236374,224236938,224237974,224241845,224242025,224242501,224243164,224243630,224243960,
5851064190000910853+-NM_001135450213701083chr1224244399352122881067,98,74,229,99,35,139,65,190,87,0,67,165,239,468,567,602,741,806,996,224232111,224236374,224236938,224237974,224241845,224242025,224242501,224243164,224243630,224243960,
58515742200001110380+-NM_001256456264101596chr12242443993521232812107,396,77,98,74,229,99,35,139,65,190,87,0,107,503,580,678,752,981,1080,1115,1254,1319,1509,224232071,224234123,224235474,224236374,224236938,224237974,224241845,224242025,224242501,224243164,224243630,224243960,

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