Schema for refSeqAli
  Database: musFur1    Primary Table: refSeqAli    Row Count: 65   Data last updated: 2019-03-08
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 637smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1132int(10) unsigned range Number of bases that match that aren't repeats
misMatches 0int(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 15850int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName NM_001278660varchar(255) values Query sequence name
qSize 1133int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1132int(10) unsigned range Alignment end position in query
tName GL896946varchar(255) values Target sequence name
tSize 12661774int(10) unsigned range Target sequence size
tStart 6859332int(10) unsigned range Alignment start position in target
tEnd 6876314int(10) unsigned range Alignment end position in target
blockCount 9int(10) unsigned range Number of blocks in alignment
blockSizes 269,56,135,52,71,102,178,18...longblob   Size of each block
qStarts 1,270,326,461,513,584,686,8...longblob   Start of each block in query.
tStarts 6859332,6859923,6860336,686...longblob   Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via refSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via refSeqAli.qName)
      hgFixed.gbSeq.acc (via refSeqAli.qName)
      hgFixed.gbWarn.acc (via refSeqAli.qName)
      hgFixed.imageClone.acc (via refSeqAli.qName)
      hgFixed.refLink.mrnaAcc (via refSeqAli.qName)
      hgFixed.refSeqStatus.mrnaAcc (via refSeqAli.qName)
      hgFixed.refSeqSummary.mrnaAcc (via refSeqAli.qName)
      knownGeneV39.kgXref.refseq (via refSeqAli.qName)
      knownGeneV39.knownToRefSeq.value (via refSeqAli.qName)
      musFur1.all_est.qName (via refSeqAli.qName)
      musFur1.all_mrna.qName (via refSeqAli.qName)
      musFur1.mrnaOrientInfo.name (via refSeqAli.qName)
      musFur1.refFlat.name (via refSeqAli.qName)
      musFur1.refGene.name (via refSeqAli.qName)
      musFur1.xenoMrna.qName (via refSeqAli.qName)
      musFur1.xenoRefGene.name (via refSeqAli.qName)
      musFur1.xenoRefSeqAli.qName (via refSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
637113200000815850-NM_001278660113301132GL89694612661774685933268763149269,56,135,52,71,102,178,186,83,1,270,326,461,513,584,686,864,1050,6859332,6859923,6860336,6861018,6861871,6863133,6864005,6865726,6876231,
586161700000623926+NM_001281942161701617GL8969738897836154631180174738,83,145,90,132,129,1000,0,38,121,266,356,488,617,154631,161453,162831,168797,170104,176510,179174,
61827660370000621449-NM_001282035313603136GL8970306340249435217943767647867,197,273,194,1370,149,86,0,867,1064,1337,1531,2901,3050,4352179,4353545,4354805,4355928,4359157,4364674,4376678,
618915025100046052-NM_001282036116801166GL8970306340249436381843710365590,149,206,138,83,2,592,741,947,1085,4363818,4364674,4365747,4370197,4370953,
59899918400021659+NM_001286171108401084GL897005708117217398061742549372,93,919,0,72,165,1739806,1740806,1741630,
59879000033416552+NM_0012861707940793GL897005708117217398061757148872,93,59,146,399,13,3,5,0,72,165,224,370,770,784,788,1739806,1740806,1749591,1749977,1756728,1757127,1757140,1757143,
622185400000414401+NM_001289904185401854GL8969649811631495923249754875175,158,176,86,1259,0,175,333,509,595,4959232,4971489,4972917,4973890,4974228,
5898350000045932-NM_0012904718350835GL89713425263855480015547685244,86,176,137,192,0,244,330,506,643,548001,549005,549602,550520,554576,
62867230000016653-NM_001291198672306723GL89702864078035662591567596726502,221,0,6502,5662591,5675746,
62867230000016653-NM_001291199672306723GL89702864078035662591567596726502,221,0,6502,5662591,5675746,

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