Schema for all_mrna
  Database: canFam1    Primary Table: all_mrna    Row Count: 3,859   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 630smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 4109int(10) unsigned range Number of bases that match that aren't repeats
misMatches 111int(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 6int(10) unsigned range Number of inserts in target
tBaseInsert 6int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName AB012223varchar(255) values Query sequence name
qSize 4251int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 4220int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 124897793int(10) unsigned range Target sequence size
tStart 5974522int(10) unsigned range Alignment start position in target
tEnd 5978748int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 226,1001,77,1124,750,669,373,longblob   Size of each block
qStarts 31,257,1258,1335,2459,3209,...longblob   Start of each block in query.
tStarts 5974522,5974749,5975751,597...longblob   Start of each block in target.

Connected Tables and Joining Fields
        canFam1.all_est.qName (via all_mrna.qName)
      canFam1.mrnaOrientInfo.name (via all_mrna.qName)
      canFam1.refGene.name (via all_mrna.qName)
      canFam1.refSeqAli.qName (via all_mrna.qName)
      canFam1.xenoMrna.qName (via all_mrna.qName)
      canFam1.xenoRefGene.name (via all_mrna.qName)
      canFam1.xenoRefSeqAli.qName (via all_mrna.qName)
      hgFixed.gbCdnaInfo.acc (via all_mrna.qName)
      hgFixed.gbMiscDiff.acc (via all_mrna.qName)
      hgFixed.gbSeq.acc (via all_mrna.qName)
      hgFixed.gbWarn.acc (via all_mrna.qName)
      hgFixed.imageClone.acc (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
6304109111000066-AB012223425104220chr1124897793597452259787487226,1001,77,1124,750,669,373,31,257,1258,1335,2459,3209,3878,5974522,5974749,5975751,5975829,5976954,5977705,5978375,
64546000000435293+HM1545314600460chr1124897793794322179789745161,129,30,35,105,0,161,290,320,355,7943221,7971092,7973074,7977128,7978869,
10409910600009612332-AB012223425104205chr11248977939083878970041510182,749,848,17,423,262,220,19,901,584,46,228,977,1825,1842,2265,2527,2747,2766,3667,9083878,9327836,9697132,9697981,9697999,9698424,9698687,9698908,9698929,9699831,
83411710000131289587+AB012223425104220chr1124897793104906081078441233224,791,202,0,3227,4018,10490608,10493832,10784210,
6694099109000000-AB012223425104208chr1124897793110327191103692714208,43,11032719,
7054109110001145-AB012223425104220chr112489779315739801157440255357,378,1647,622,1215,31,389,767,2414,3036,15739801,15740160,15740539,15742187,15742810,
1124560031043165513+AB154172137401355chr11248977931662449216791256688,59,209,229,328,338,0,90,149,359,689,1017,16624492,16624580,16624865,16625074,16625364,16790918,
1578290011042165299+AY5095637110711chr112489779316625147167910533145,327,135,0,249,576,16625147,16625365,16790918,
1664200001165226+AB1161456861667chr112489779316625364167912562328,338,1,329,16625364,16790918,
139225002273165253+KC15295246218462chr11248977931662538316791053449,44,189,135,18,72,138,327,16625383,16625437,16625503,16790918,

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