Schema for xenoRefSeqAli
  Database: susScr11    Primary Table: xenoRefSeqAli    Row Count: 226,322   Data last updated: 2020-08-20
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 185int(10) unsigned range Number of bases that match that aren't repeats
misMatches 82int(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 1int(10) unsigned range Number of inserts in target
tBaseInsert 1409int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001179038varchar(255) values Query sequence name
qSize 723int(10) unsigned range Query sequence size
qStart 381int(10) unsigned range Alignment start position in query
qEnd 648int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 274330532int(10) unsigned range Target sequence size
tStart 791int(10) unsigned range Alignment start position in target
tEnd 2467int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 165,102,longblob   Size of each block
qStarts 381,546,longblob   Start of each block in query.
tStarts 791,2365,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)
      susScr11.all_est.qName (via xenoRefSeqAli.qName)
      susScr11.all_mrna.qName (via xenoRefSeqAli.qName)
      susScr11.refGene.name (via xenoRefSeqAli.qName)
      susScr11.refSeqAli.qName (via xenoRefSeqAli.qName)
      susScr11.xenoMrna.qName (via xenoRefSeqAli.qName)
      susScr11.xenoRefFlat.name (via xenoRefSeqAli.qName)
      susScr11.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58518582000011409++NM_001179038723381648chr127433053279124672165,102,381,546,791,2365,
58525878000022061++NM_00104359412407951131chr127433053279131883167,98,71,795,962,1060,791,2367,3117,
58523799000022061++NM_0012881611148464800chr127433053279131883165,100,71,464,629,729,791,2365,3117,
585232104000022061++NM_1121901223520856chr127433053279131883165,100,71,520,685,785,791,2365,3117,
58528560000022061++NM_00109556912496551000chr127433053279131973167,98,80,655,822,920,791,2367,3117,
58527471000022061++NM_0012788551246611956chr127433053279131973167,98,80,611,778,876,791,2367,3117,
5857225700713672195++NM_00110460718148981813chr1274330532791376511170,95,123,10,13,13,71,78,67,76,63,898,1068,1163,1295,1308,1322,1451,1522,1605,1673,1750,791,2370,3117,3245,3255,3268,3400,3475,3556,3623,3702,
5858024100692102144++NM_00107574219519931928chr1274330532791377812170,95,123,10,6,20,16,70,65,36,67,165,993,1163,1258,1389,1399,1409,1465,1521,1591,1656,1695,1763,791,2370,3117,3246,3257,3270,3326,3371,3442,3509,3546,3613,
5857125400516862221++NM_00128498318529031837chr127433053279137789170,95,123,81,78,67,76,31,45,903,1073,1168,1451,1532,1615,1683,1760,1792,791,2370,3117,3390,3475,3556,3623,3702,3733,
5857475500813972195++NM_00117208517197521693chr1274330532791378812170,95,123,10,11,15,71,78,67,76,31,55,752,922,1017,1150,1163,1175,1306,1377,1460,1528,1605,1638,791,2370,3117,3245,3255,3266,3400,3475,3556,3623,3702,3733,

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