Schema for all_mrna
  Database: danRer7    Primary Table: all_mrna    Row Count: 34,522   Data last updated: 2020-08-21
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 1733int(10) unsigned range Number of bases that match that aren't repeats
misMatches 3int(10) unsigned range Number of bases that don't match
repMatches 4int(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 14int(10) unsigned range Number of inserts in target
tBaseInsert 20427int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName BC157389varchar(255) values Query sequence name
qSize 3017int(10) unsigned range Query sequence size
qStart 34int(10) unsigned range Alignment start position in query
qEnd 1774int(10) unsigned range Alignment end position in query
tName Zv9_NA110varchar(255) values Target sequence name
tSize 25708int(10) unsigned range Target sequence size
tStart 3369int(10) unsigned range Alignment start position in target
tEnd 25536int(10) unsigned range Alignment end position in target
blockCount 15int(10) unsigned range Number of blocks in alignment
blockSizes 195,105,82,129,53,191,66,55...longblob   Size of each block
qStarts 34,229,334,416,545,598,789,...longblob   Start of each block in query.
tStarts 3369,4371,5127,7177,8049,11...longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer7.all_est.qName (via all_mrna.qName)
      danRer7.mgcFullMrna.qName (via all_mrna.qName)
      danRer7.mgcGenes.name (via all_mrna.qName)
      danRer7.mrnaOrientInfo.name (via all_mrna.qName)
      danRer7.refGene.name (via all_mrna.qName)
      danRer7.refSeqAli.qName (via all_mrna.qName)
      danRer7.xenoMrna.qName (via all_mrna.qName)
      danRer7.xenoRefGene.name (via all_mrna.qName)
      danRer7.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
5851733340001420427+BC1573893017341774Zv9_NA1102570833692553615195,105,82,129,53,191,66,55,80,134,75,172,217,65,121,34,229,334,416,545,598,789,855,910,990,1124,1199,1371,1588,1653,3369,4371,5127,7177,8049,11127,13688,13992,14258,15888,16240,19924,20951,22766,25415,
58586130013031858-BC04887837767411635Zv9_NA1196288116138834551,116,129,68,2141,2692,2808,2967,1161,1983,3095,3815,
585210010000212718-BC165814140233253Zv9_NA12218352012938356,127,37,1149,1205,1332,0,6871,12901,
585260110000212718-AF33983816840271Zv9_NA12218352012989356,127,88,1413,1469,1596,0,6871,12901,
585260110000212718-AY693994169411282Zv9_NA12218352012989356,127,88,1412,1468,1595,0,6871,12901,
585467110000212718-BC04545119450478Zv9_NA12218352013196356,127,295,1467,1523,1650,0,6871,12901,
585472110000212718-BC06566119190483Zv9_NA12218352013201356,127,300,1436,1492,1619,0,6871,12901,
5851216627400024274-BC1428291572591555Zv9_NA12351610391504492031124,144,228,17,1141,1285,39150,41107,44692,
58584847500063959+BC04601413820927Zv9_NA129907935098395762,129,73,276,204,104,79,0,62,191,264,540,744,848,3509,4182,4386,5940,6841,7126,8316,
5851182170650069757-BC06756319757111975Zv9_NA141157324104151257422,115,158,165,185,103,116,0,422,537,695,860,1045,1148,4104,5208,5406,5776,8387,12189,15009,

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