Schema for all_mrna
  Database: bosTau9    Primary Table: all_mrna    Row Count: 21,209   Data last updated: 2019-05-17
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 589smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1979int(10) unsigned range Number of bases that match that aren't repeats
misMatches 10int(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 2int(10) unsigned range Number of inserts in target
tBaseInsert 26306int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName BC114143varchar(255) values Query sequence name
qSize 2700int(10) unsigned range Query sequence size
qStart 547int(10) unsigned range Alignment start position in query
qEnd 2536int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 158534110int(10) unsigned range Target sequence size
tStart 626200int(10) unsigned range Alignment start position in target
tEnd 654495int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 271,120,1598,longblob   Size of each block
qStarts 547,818,938,longblob   Start of each block in query.
tStarts 626200,645833,652897,longblob   Start of each block in target.

Connected Tables and Joining Fields
        bosTau9.all_est.qName (via all_mrna.qName)
      bosTau9.mrnaOrientInfo.name (via all_mrna.qName)
      bosTau9.refGene.name (via all_mrna.qName)
      bosTau9.refSeqAli.qName (via all_mrna.qName)
      bosTau9.xenoRefGene.name (via all_mrna.qName)
      bosTau9.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
5891979100000226306+BC11414327005472536chr11585341106262006544953271,120,1598,547,818,938,626200,645833,652897,
59222730000048929+BC103185234212274chr115853411099102210022245167,174,160,1726,46,1,168,342,502,2228,991022,994378,997108,1000451,1002178,
59222512000038928+BT030515225302253chr115853411099104110022224148,174,160,1771,0,148,322,482,991041,994378,997108,1000451,
5927951000025700+BC1128739091797chr115853411010405221047018372,95,629,1,73,168,1040522,1041573,1046389,
59310127000000-BC110185111821021chr11585341101099124110014311019,97,1099124,
59352200000314912-BC1461345391523chr1158534110110287811183124183,178,99,62,16,199,377,476,1102878,1105542,1112102,1118250,
5937790000017029-BC1116627941780chr1158534110112394011317482673,106,14,687,1123940,1131642,
7488900000263463-BC1029789141890chr1158534110139081414551663563,140,186,24,587,727,1390814,1407056,1454980,
5956224000023-S728776260626chr1158534110143040214310313363,3,260,0,363,366,1430402,1430767,1430771,
5977364000066619+M1875377939779chr115853411016436791651038766,51,111,130,113,87,182,39,105,156,267,397,510,597,1643679,1645081,1646078,1648342,1649154,1650492,1650856,

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