Schema for all_mrna
  Database: criGriChoV2    Primary Table: all_mrna    Row Count: 71,704   Data last updated: 2018-10-31
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 3503int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 1int(10) unsigned range Number of bases inserted in query
tNumInsert 4int(10) unsigned range Number of inserts in target
tBaseInsert 5306int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName JI872642varchar(255) values Query sequence name
qSize 3515int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 3504int(10) unsigned range Alignment end position in query
tName LT883664v1varchar(255) values Target sequence name
tSize 224834208int(10) unsigned range Target sequence size
tStart 593161int(10) unsigned range Alignment start position in target
tEnd 601970int(10) unsigned range Alignment end position in target
blockCount 6int(10) unsigned range Number of blocks in alignment
blockSizes 227,74,77,116,2946,63,longblob   Size of each block
qStarts 0,227,301,378,494,3441,longblob   Start of each block in query.
tStarts 593161,594800,596775,597919...longblob   Start of each block in target.

Connected Tables and Joining Fields
        criGriChoV2.all_est.qName (via all_mrna.qName)
      criGriChoV2.mrnaOrientInfo.name (via all_mrna.qName)
      criGriChoV2.refGene.name (via all_mrna.qName)
      criGriChoV2.refSeqAli.qName (via all_mrna.qName)
      criGriChoV2.xenoRefGene.name (via all_mrna.qName)
      criGriChoV2.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
58935030001145306+JI872642351503504LT883664v12248342085931616019706227,74,77,116,2946,63,0,227,301,378,494,3441,593161,594800,596775,597919,598961,601907,
58935000000045306+JP058409351003500LT883664v12248342085931646019705224,74,77,116,3009,0,224,298,375,491,593164,594800,596775,597919,598961,
5895382004400+JI8907765450544LT883664v1224834208594874595414534,9,4,323,170,0,35,45,50,374,594874,594908,594917,594921,595244,
5895382004400+JP0649145450544LT883664v1224834208594874595414534,9,4,323,170,0,35,45,50,374,594874,594908,594917,594921,595244,
5896010000000+JI8817416010601LT883664v12248342085959875965881601,0,595987,
5896010000000+JP0535166010601LT883664v12248342085959875965881601,0,595987,
590300000000+KC65412530030LT883664v1224834208727583727613130,0,727583,
73133900022628832-JI862564134101341LT883664v12248342089077169378879131,4,374,334,107,152,191,34,12,0,132,136,510,844,951,1103,1294,1329,907716,907847,907852,913886,914517,924998,935738,937841,937875,
73133900011628832-JP039784134001340LT883664v12248342089077169378878131,4,374,334,107,152,191,46,0,132,136,510,844,951,1103,1294,907716,907847,907852,913886,914517,924998,935738,937841,
5915125000011-JI8674065170517LT883664v12248342089102169107342491,26,0,491,910216,910708,

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