Schema for all_mrna
  Database: triMan1    Primary Table: all_mrna    Row Count: 1,297   Data last updated: 2018-11-23
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 684smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1042int(10) unsigned range Number of bases that match that aren't repeats
misMatches 5int(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 4int(10) unsigned range Number of inserts in target
tBaseInsert 4866int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName AF055319varchar(255) values Query sequence name
qSize 1047int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1047int(10) unsigned range Alignment end position in query
tName JH594607varchar(255) values Target sequence name
tSize 45942467int(10) unsigned range Target sequence size
tStart 13030698int(10) unsigned range Alignment start position in target
tEnd 13036611int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 361,169,166,240,111,longblob   Size of each block
qStarts 0,361,530,696,936,longblob   Start of each block in query.
tStarts 13030698,13033153,13034913,...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)
      triMan1.mrnaOrientInfo.name (via all_mrna.qName)
      triMan1.xenoMrna.qName (via all_mrna.qName)
      triMan1.xenoRefGene.name (via all_mrna.qName)
      triMan1.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
68410425000044866+AF055319104701047JH5946074594246713030698130366115361,169,166,240,111,0,361,530,696,936,13030698,13033153,13034913,13035233,13036500,
593600125000255156-DQ3236041850185JH5946153441264210940591149400313,135,37,0,13,148,1094059,1095700,1149363,
593370000000-DQ32360550037JH5946153441264211493631149400137,13,1149363,
596383300001282+AY7441343915391JH5946342303699415314121532080293,293,5,98,1531412,1531787,
604500510002615+DQ3236331010101JH5946921198383025349412535657310,51,40,0,10,61,2534941,2535319,2535617,
604400000000+DQ323634501050JH5946921198383025356172535657140,10,2535617,
659900000000+EF53471190090JH5946931174362197283819728471190,0,9728381,
623299012600022841-DQ3236174250425JH5947387958080507232650755923267,135,23,0,267,402,5072326,5072750,5075569,
602910000000+EF53471091091JH594744756877722671042267195191,0,2267104,
5943452000034890-U094203470347JH5947805706552129996613052034101,135,60,51,0,101,236,296,1299966,1301898,1305000,1305152,

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