Schema for all_mrna
  Database: danRer6    Primary Table: all_mrna    Row Count: 36,931   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 751int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 1int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 106int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName BC124686varchar(255) values Query sequence name
qSize 1835int(10) unsigned range Query sequence size
qStart 140int(10) unsigned range Alignment start position in query
qEnd 902int(10) unsigned range Alignment end position in query
tName Zv8_NA10086varchar(255) values Target sequence name
tSize 4353int(10) unsigned range Target sequence size
tStart 3243int(10) unsigned range Alignment start position in target
tEnd 4110int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 181,36,42,502,longblob   Size of each block
qStarts 933,1115,1151,1193,longblob   Start of each block in query.
tStarts 3243,3426,3540,3608,longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer6.all_est.qName (via all_mrna.qName)
      danRer6.mgcFullMrna.qName (via all_mrna.qName)
      danRer6.mgcGenes.name (via all_mrna.qName)
      danRer6.mrnaOrientInfo.name (via all_mrna.qName)
      danRer6.refGene.name (via all_mrna.qName)
      danRer6.refSeqAli.qName (via all_mrna.qName)
      danRer6.xenoMrna.qName (via all_mrna.qName)
      danRer6.xenoRefGene.name (via all_mrna.qName)
      danRer6.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
5857511000113106-BC1246861835140902Zv8_NA100864353324341104181,36,42,502,933,1115,1151,1193,3243,3426,3540,3608,
5856732786021016-BC15192516918811677Zv8_NA10101467513073138653103,57,626,14,125,184,13073,13182,13239,
58584712860124956034+BC122214140201383Zv8_NA101345785338696458646142,200,69,146,187,390,0,142,342,411,557,993,38696,40209,42158,44320,44778,45474,
58581202860124956034+BC074050138001347Zv8_NA101345785338732458646106,200,69,146,187,390,0,106,306,375,521,957,38732,40209,42158,44320,44778,45474,
5857931530299220375915+BC134914144101412Zv8_NA10134578533873845862920,76,200,69,146,187,122,180,209,0,20,96,296,365,511,899,1021,1203,38738,38762,40209,42158,44320,44778,45350,45473,45653,
5858015305100210255910+BC114299133701313Zv8_NA10134578533874345864795,200,69,146,187,23,491,0,95,295,364,510,798,822,38743,40209,42158,44320,44778,45350,45373,
58578312860125256034+BC1080841365111333Zv8_NA10134578533876045864678,200,71,144,187,390,11,89,289,360,504,943,38760,40209,42158,44322,44778,45474,
58578002860125256034+BC151922133701318Zv8_NA10134578533876445864674,200,69,146,187,390,0,74,274,343,489,928,38764,40209,42158,44320,44778,45474,
58587672101442270-BC124507211111782086Zv8_NA10134578535257255746637,264,160,118,138,187,25,66,330,490,608,746,52572,52609,54131,54797,55244,55559,
5858037000042270-BC165631199911541964Zv8_NA101345785352666557465207,160,118,138,187,35,242,402,520,658,52666,54131,54797,55244,55559,

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