Schema for xenoRefSeqAli
  Database: dm1    Primary Table: xenoRefSeqAli    Row Count: 49,722   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 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 739int(10) unsigned range Number of bases that match that aren't repeats
misMatches 407int(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 10int(10) unsigned range Number of inserts in query
qBaseInsert 1557int(10) unsigned range Number of bases inserted in query
tNumInsert 11int(10) unsigned range Number of inserts in target
tBaseInsert 2426int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001293598varchar(255) values Query sequence name
qSize 3522int(10) unsigned range Query sequence size
qStart 152int(10) unsigned range Alignment start position in query
qEnd 2855int(10) unsigned range Alignment end position in query
tName chr2Lvarchar(255) values Target sequence name
tSize 22217931int(10) unsigned range Target sequence size
tStart 12139int(10) unsigned range Alignment start position in target
tEnd 15711int(10) unsigned range Alignment end position in target
blockCount 12int(10) unsigned range Number of blocks in alignment
blockSizes 135,135,27,90,159,54,165,72...longblob   Size of each block
qStarts 152,485,659,1373,1511,1709,...longblob   Start of each block in query.
tStarts 22202220,22202571,22202745,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        dm1.all_est.qName (via xenoRefSeqAli.qName)
      dm1.all_mrna.qName (via xenoRefSeqAli.qName)
      dm1.refGene.name (via xenoRefSeqAli.qName)
      dm1.refSeqAli.qName (via xenoRefSeqAli.qName)
      dm1.xenoMrna.qName (via xenoRefSeqAli.qName)
      dm1.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58573940700101557112426+-NM_00129359835221522855chr2L22217931121391571112135,135,27,90,159,54,165,72,93,36,98,82,152,485,659,1373,1511,1709,1817,1994,2147,2369,2675,2773,22202220,22202571,22202745,22203499,22203649,22203847,22203973,22204147,22204306,22205161,22205548,22205710,
58510923870021779711739+-NM_00111026936742773535chr2L2221793126544397628159,120,193,227,437,198,2,143,277,637,2335,2528,2755,3192,3390,3392,22178169,22179200,22189006,22189691,22190442,22190967,22191188,22191244,
58510923870021779711739+-NM_00111432736742773535chr2L2221793126544397628159,120,193,227,437,198,2,143,277,637,2335,2528,2755,3192,3390,3392,22178169,22179200,22189006,22189691,22190442,22190967,22191188,22191244,
58511970000000+-NM_001281892684447636chr2L2221793183387835761189,447,22134355,
713257112000000++NM_001205421819411780chr3L2335221316805864168062331369,411,16805864,
58515818760083069103353++NM_00119290667497026228chr2L222179319577410158411213,108,90,297,255,711,129,174,177,144,159,702,945,1131,1677,4416,4671,5403,5538,5718,5895,6069,95774,96017,96182,96824,99468,99784,100571,100764,101017,101248,101425,
58515958620083135103353++NM_00127199971938066398chr2L222179319577410158411213,108,90,297,255,711,129,174,175,146,159,806,1049,1235,1781,4586,4841,5573,5708,5888,6063,6239,95774,96017,96182,96824,99468,99784,100571,100764,101017,101246,101425,
58515898620083054103359++NM_00127200071068066311chr2L222179319577410158411213,108,90,297,255,711,123,174,175,146,159,806,1049,1235,1781,4493,4748,5492,5621,5801,5976,6152,95774,96017,96182,96824,99468,99784,100577,100764,101017,101246,101425,
58515958620083042103353++NM_00127200171008066305chr2L222179319577410158411213,108,90,297,255,711,129,174,175,146,159,806,1049,1235,1781,4493,4748,5480,5615,5795,5970,6146,95774,96017,96182,96824,99468,99784,100571,100764,101017,101246,101425,
58515778800083132103353++NM_00129063671398556444chr2L222179319577410158411213,108,90,297,255,711,129,174,177,144,159,855,1098,1284,1830,4632,4887,5619,5754,5934,6111,6285,95774,96017,96182,96824,99468,99784,100571,100764,101017,101248,101425,

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