Schema for xenoMrna
  Database: oryLat2    Primary Table: xenoMrna    Row Count: 5,215,921   Data last updated: 2020-08-19
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 586smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 88int(10) unsigned Number of bases that match that aren't repeats
misMatches 30int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 1int(10) unsigned Number of inserts in query
qBaseInsert 245int(10) unsigned Number of bases inserted in query
tNumInsert 2int(10) unsigned Number of inserts in target
tBaseInsert 1399int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName JU488914varchar(255) Query sequence name
qSize 775int(10) unsigned Query sequence size
qStart 118int(10) unsigned Alignment start position in query
qEnd 481int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 39973033int(10) unsigned Target sequence size
tStart 165100int(10) unsigned Alignment start position in target
tEnd 166617int(10) unsigned Alignment end position in target
blockCount 3int(10) unsigned Number of blocks in alignment
blockSizes 29,14,75,longblob Size of each block
qStarts 118,147,406,longblob Start of each block in query.
tStarts 39806416,39806531,39807858,longblob Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)
      oryLat2.all_est.qName (via xenoMrna.qName)
      oryLat2.all_mrna.qName (via xenoMrna.qName)
      oryLat2.refGene.name (via xenoMrna.qName)
      oryLat2.refSeqAli.qName (via xenoMrna.qName)
      oryLat2.xenoRefFlat.name (via xenoMrna.qName)
      oryLat2.xenoRefGene.name (via xenoMrna.qName)
      oryLat2.xenoRefSeqAli.qName (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
586883000124521399+-JU488914775118481chr139973033165100166617329,14,75,118,147,406,39806416,39806531,39807858,
586771700122421399+-JR39546440277395chr139973033165124166617329,14,51,77,106,344,39806416,39806531,39807858,
58669120000121++JW088626378889chr139973033170553170655232,49,8,40,170553,170606,
58645414807335751113+-JW5965802315901056chr139973033178773180495693,87,57,258,39,75,90,183,270,357,669,981,39792538,39792794,39792952,39793642,39793942,39794185,
5869522470344372114613+-JW59658237829182523chr13997303317877318461912156,117,54,147,78,81,84,87,57,258,39,75,918,1074,1191,1245,1392,1485,1566,1650,1737,1824,2136,2448,39788414,39790865,39791089,39791284,39791760,39792323,39792547,39792794,39792952,39793642,39793942,39794185,
5868311900206339124661+-JP74427519945851965chr13997303317888718458913126,117,54,18,99,78,82,84,93,39,129,76,46,585,711,828,882,930,1029,1121,1203,1287,1530,1572,1755,1919,39788444,39790865,39791089,39791284,39791332,39791760,39792322,39792547,39792794,39793720,39793768,39793936,39794100,
5863579900431651766++KF53953412114101182chr139973033179052181274646,115,96,36,82,81,410,497,830,971,1007,1101,179052,179133,180146,180450,180629,181193,
5866834000000+-JI891675488136238chr1399730331791331792351102,136,39793798,
5866834000000+-JP049137488136238chr1399730331791331792351102,136,39793798,
5862319000446242175+-AK13457519092785chr139973033179133181629527,42,69,81,102,2,65,128,200,683,39791404,39791796,39792335,39792550,39793798,

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