Schema for xenoRefSeqAli
  Database: tarSyr1    Primary Table: xenoRefSeqAli    Row Count: 888,233   Data last updated: 2020-09-01
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 73smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 1089int(10) unsigned Number of bases that match that aren't repeats
misMatches 147int(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 1int(10) unsigned Number of bases inserted in query
tNumInsert 9int(10) unsigned Number of inserts in target
tBaseInsert 214280int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_001199446varchar(255) Query sequence name
qSize 2479int(10) unsigned Query sequence size
qStart 709int(10) unsigned Alignment start position in query
qEnd 1946int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 329427int(10) unsigned Target sequence size
tStart 26364int(10) unsigned Alignment start position in target
tEnd 241880int(10) unsigned Alignment end position in target
blockCount 10int(10) unsigned Number of blocks in alignment
blockSizes 35,82,162,173,135,135,152,1...longblob Size of each block
qStarts 709,744,826,988,1161,1297,1...longblob Start of each block in query.
tStarts 87547,87583,139811,198872,2...longblob Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)
      tarSyr1.all_mrna.qName (via xenoRefSeqAli.qName)
      tarSyr1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      tarSyr1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73108914700119214280+-NM_00119944624797091946scaffold_0329427263642418801035,82,162,173,135,135,152,148,142,72,709,744,826,988,1161,1297,1432,1584,1732,1874,87547,87583,139811,198872,212748,216348,290595,299068,302334,302991,
736022900005214885+-NM_004392463412701901scaffold_032942726364241880633,84,152,148,142,72,1270,1303,1387,1539,1687,1829,87547,87581,290595,299068,302334,302991,
737563700006214723+-NM_080760479612702063scaffold_032942726364241880733,84,162,152,148,142,72,1270,1303,1387,1549,1701,1849,1991,87547,87581,139811,290595,299068,302334,302991,
73101322100009214279+-NM_00107870838118202054scaffold_0329427263652418781033,82,162,173,134,137,152,148,137,76,820,853,935,1097,1270,1404,1541,1693,1841,1978,87549,87583,139811,198872,212748,216346,290595,299068,302334,302986,
739062680025110214339+-NM_00108067324317611986scaffold_0329427263652418781133,82,162,173,132,87,61,83,148,142,71,761,794,876,1038,1211,1349,1481,1542,1625,1773,1915,87549,87583,139811,198872,212748,216350,290597,290664,299068,302334,302991,
7310052320011539214276+-NM_001096718390011012491scaffold_0329427263652418781033,82,164,174,134,137,152,148,137,76,1101,1134,1216,1533,1707,1841,1978,2130,2278,2415,87549,87583,139811,198871,212748,216346,290595,299068,302334,302986,
738802700037511214363+-NM_00110487431905351760scaffold_0329427263652418781233,84,7,144,173,135,84,42,87,148,144,69,535,568,652,659,803,985,1126,1270,1312,1399,1547,1691,87549,87583,95272,139829,198872,212748,216353,290612,290660,299068,302334,302993,
73113310300009214279+-NM_001038610531012822518scaffold_0329427263652418801033,84,162,173,136,135,152,148,142,71,1282,1315,1399,1561,1734,1870,2005,2157,2305,2447,87547,87581,139811,198872,212748,216348,290595,299068,302334,302991,
731264128000010214123+-NM_007826546612822674scaffold_0329427263652418801133,84,162,156,173,136,135,152,148,142,71,1282,1315,1399,1561,1717,1890,2026,2161,2313,2461,2603,87547,87581,139811,198271,198872,212748,216348,290595,299068,302334,302991,
736372180053338214657+-NM_00104523623067681956scaffold_032942726366241878933,54,171,132,114,78,147,96,30,768,957,1011,1182,1323,1521,1599,1755,1926,87549,139921,198874,212748,216353,290669,299068,302342,303031,

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