Schema for all_mrna
  Database: papAnu2    Primary Table: all_mrna    Row Count: 795   Data last updated: 2019-12-07
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 339int(10) unsigned range Number of bases that match that aren't repeats
misMatches 13int(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 1int(10) unsigned range Number of inserts in target
tBaseInsert 84int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName AF416369varchar(255) values Query sequence name
qSize 435int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 352int(10) unsigned range Alignment end position in query
tName AHZZ01125719varchar(255) values Target sequence name
tSize 51773int(10) unsigned range Target sequence size
tStart 3473int(10) unsigned range Alignment start position in target
tEnd 3909int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 306,46,longblob   Size of each block
qStarts 83,389,longblob   Start of each block in query.
tStarts 3473,3863,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      papAnu2.all_est.qName (via all_mrna.qName)
      papAnu2.mrnaOrientInfo.name (via all_mrna.qName)
      papAnu2.refGene.name (via all_mrna.qName)
      papAnu2.refSeqAli.qName (via all_mrna.qName)
      papAnu2.xenoMrna.qName (via all_mrna.qName)
      papAnu2.xenoRefGene.name (via all_mrna.qName)
      papAnu2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585339130000184-AF4163694350352AHZZ0112571951773347339092306,46,83,389,3473,3863,
585177800182841-KP89358910988941087AHZZ0115004213432541280337,30,118,11,56,86,254,405,1162,
585177800182841-KP89360410988941087AHZZ0115004213432541280337,30,118,11,56,86,254,405,1162,
58528915004400-AF41635343847355AHZZ0116878310046559595183,30,31,25,35,83,267,298,330,356,655,838,868,899,924,
585339130000184-AF4163694350352AHZZ011815035316470651422306,46,83,389,4706,5096,
585339130000184+AF4163694350352JH68098416932174610246,306,0,46,174,304,
5851043175201171821-AF059191111301113JH68135512370772910662936,5,42,33,117,276,276,270,57,0,36,42,84,117,234,510,786,1056,7729,7932,7937,8121,8596,8815,9687,10206,10605,
5851040215101171821-AF059192111301113JH6813551237077291066297,29,47,33,117,276,276,270,57,0,8,37,84,117,234,510,786,1056,7729,7736,7932,8121,8596,8815,9687,10206,10605,
5859584752053581693-U35626109201092JH68135512370792810678124,5,42,33,92,16,276,276,44,11,185,73,0,5,11,53,86,181,197,473,749,802,834,1019,7928,7932,7937,8121,8596,8697,8815,9687,10206,10280,10291,10605,
585100419000061654-LN852167102301023JH68135512370795810635721,33,117,276,276,270,30,0,21,54,171,447,723,993,7958,8121,8596,8815,9687,10206,10605,

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