Schema for all_mrna
  Database: danRer3    Primary Table: all_mrna    Row Count: 42,402   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 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 869int(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 3int(10) unsigned range Number of inserts in target
tBaseInsert 198373int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName KC999394varchar(255) values Query sequence name
qSize 1689int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 874int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 55805710int(10) unsigned range Target sequence size
tStart 9163int(10) unsigned range Alignment start position in target
tEnd 208410int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 166,392,159,157,longblob   Size of each block
qStarts 815,981,1373,1532,longblob   Start of each block in query.
tStarts 9163,37776,132256,208253,longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer3.all_est.qName (via all_mrna.qName)
      danRer3.mgcFullMrna.qName (via all_mrna.qName)
      danRer3.mgcGenes.name (via all_mrna.qName)
      danRer3.mrnaOrientInfo.name (via all_mrna.qName)
      danRer3.refGene.name (via all_mrna.qName)
      danRer3.refSeqAli.qName (via all_mrna.qName)
      danRer3.xenoMrna.qName (via all_mrna.qName)
      danRer3.xenoRefGene.name (via all_mrna.qName)
      danRer3.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
73869500003198373-KC99939416890874chr15580571091632084104166,392,159,157,815,981,1373,1532,9163,37776,132256,208253,
5937814001200+BC13986919620787chr1971278240110635811071432205,580,0,207,1106358,1106563,
735149329300020136520+AY428801531685282chr15580571039331553510921514,25,142,178,182,231,156,170,156,145,350,145,84,162,260,94,33,60,1385,317,485,8,522,547,689,867,1049,1280,1436,1606,1762,1907,2257,2402,2486,2648,2908,3002,3035,3095,4480,4797,393315,393830,393856,411210,430448,457532,460049,463278,466999,476158,477503,488949,499048,501239,509467,510096,514086,528527,53 ...
733744234500017136523+AY437405381203812chr15580571039331653365118217,458,178,182,231,156,170,156,145,350,145,84,162,260,94,33,60,731,0,217,675,853,1035,1266,1422,1592,1748,1893,2243,2388,2472,2634,2894,2988,3021,3081,393316,393540,411210,430448,457532,460049,463278,466999,476158,477503,488949,499048,501239,509467,510096,514086,528527,532920,
7335326000017136523+BC162118353803538chr15580571039342053348118113,458,178,182,231,156,170,156,145,350,145,84,162,260,94,33,60,561,0,113,571,749,931,1162,1318,1488,1644,1789,2139,2284,2368,2530,2790,2884,2917,2977,393420,393540,411210,430448,457532,460049,463278,466999,476158,477503,488949,499048,501239,509467,510096,514086,528527,532920,
73376914000018137751+AY351912378403783chr15580571039357353510719425,178,182,231,156,170,156,145,350,145,84,162,260,94,33,60,585,44,323,0,425,603,785,1016,1172,1342,1498,1643,1993,2138,2222,2384,2644,2738,2771,2831,3416,3460,393573,411210,430448,457532,460049,463278,466999,476158,477503,488949,499048,501239,509467,510096,514086,528527,532920,534686,53 ...
58840810000117212+AY4374004370409chr155805710393925411546273,336,0,73,393925,411210,
588103714339000566488+AY437399142301390chr155805710393925461803673,178,182,231,156,570,0,73,251,433,664,820,393925,411210,430448,457532,460049,461233,
588567200123625+BC13421913300571chr155805710440052441246510,94,21,169,275,0,12,106,127,296,440052,440062,440556,440679,440971,
588562200003625+BC15252713323567chr155805710440057441246499,21,169,275,3,102,123,292,440057,440556,440679,440971,

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