Schema for all_mrna
  Database: petMar2    Primary Table: all_mrna    Row Count: 3,712   Data last updated: 2020-08-22
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 99int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1int(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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName EF094670varchar(255) values Query sequence name
qSize 594int(10) unsigned range Query sequence size
qStart 264int(10) unsigned range Alignment start position in query
qEnd 364int(10) unsigned range Alignment end position in query
tName GL476332varchar(255) values Target sequence name
tSize 750817int(10) unsigned range Target sequence size
tStart 20633int(10) unsigned range Alignment start position in target
tEnd 20733int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 100,longblob   Size of each block
qStarts 230,longblob   Start of each block in query.
tStarts 20633,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)
      petMar2.all_est.qName (via all_mrna.qName)
      petMar2.mrnaOrientInfo.name (via all_mrna.qName)
      petMar2.xenoRefGene.name (via all_mrna.qName)
      petMar2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585991000000-EF094670594264364GL47633275081720633207331100,230,20633,
58642501700111658344+AY744919428704268GL47633275081715400321661418527,225,144,104,181,168,165,27,198,459,88,169,237,150,165,179,452,629,0,527,752,896,1000,1181,1349,1514,1541,1739,2198,2286,2455,2692,2842,3007,3186,3639,154003,185315,188095,189182,191636,195637,196404,197351,198554,201370,204114,204915,206866,209368,210206,212280,215533,215985,
586284913690001658344+JN159936293102931GL47633275081715442121569617109,225,144,104,181,168,165,27,198,459,88,169,237,150,165,179,163,0,109,334,478,582,763,931,1096,1123,1321,1780,1868,2037,2274,2424,2589,2768,154421,185315,188095,189182,191636,195637,196404,197351,198554,201370,204114,204915,206866,209368,210206,212280,215533,
58654616000035848+AF12947560023585GL4763327508171854071918174133,144,104,181,23,156,300,404,185407,188095,189182,191636,
59976300000428432-EU57120810953321095GL4763352214433184878018779755191,154,130,129,159,0,191,345,475,604,1848780,1851204,1874621,1876982,1877816,
5991880000012265-EU5712081095146334GL4763352214433185323718556902143,45,761,904,1853237,1855645,
58535741259011911994+AF1923803876403875GL4763505841738487243151139,47,63,105,109,324,168,120,141,2303,415,40,79,126,189,294,403,727,895,1015,1156,3460,8487,11174,13942,15794,16206,18584,19954,21017,21314,21597,23900,
585173927600066731+AF424733182141821GL4763505841731394122489764,105,324,168,120,144,892,4,68,173,497,665,785,929,13941,15794,18584,19954,21017,21311,21597,
58821828200002021707+DQ136024221992219GL4763505841734009014248182163,54,54,54,54,108,54,54,162,108,108,54,108,54,108,54,108,289,188,243,131,9,72,126,180,234,288,396,450,504,666,774,882,936,1044,1098,1206,1260,1368,1657,1845,2088,400901,401849,402245,403021,403431,404890,405367,405999,406641,407645,408093,408328,409686,419708,419914,420919,421328,421966,42 ...
585316200145229960-FP24332578616786GL4763606080082179932077363,197,58,0,515,712,21799,30221,32019,

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