Schema for xenoRefSeqAli
  Database: cb1    Primary Table: xenoRefSeqAli    Row Count: 234,068   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 976smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 5636int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1451int(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 9int(10) unsigned range Number of inserts in query
qBaseInsert 62int(10) unsigned range Number of bases inserted in query
tNumInsert 19int(10) unsigned range Number of inserts in target
tBaseInsert 8762int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_060438varchar(255) values Query sequence name
qSize 7391int(10) unsigned range Query sequence size
qStart 50int(10) unsigned range Alignment start position in query
qEnd 7199int(10) unsigned range Alignment end position in query
tName chrUnvarchar(255) values Target sequence name
tSize 109024926int(10) unsigned range Target sequence size
tStart 51289379int(10) unsigned range Alignment start position in target
tEnd 51305228int(10) unsigned range Alignment end position in target
blockCount 22int(10) unsigned range Number of blocks in alignment
blockSizes 51,157,94,102,106,63,144,90...longblob   Size of each block
qStarts 50,101,260,354,456,562,626,...longblob   Start of each block in query.
tStarts 51289379,51289972,51291291,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        cb1.all_est.qName (via xenoRefSeqAli.qName)
      cb1.all_mrna.qName (via xenoRefSeqAli.qName)
      cb1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      cb1.xenoRefGene.name (via xenoRefSeqAli.qName)
      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)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
9765636145100962198762++NM_0604387391507199chrUn10902492651289379513052282251,157,94,102,106,63,144,90,166,948,537,96,1059,453,301,229,169,1434,90,459,178,161,50,101,260,354,456,562,626,772,862,1031,2000,2540,2639,3698,4172,4473,4702,4877,6311,6401,6860,7038,51289379,51289972,51291291,51292255,51292408,51292566,51293367,51296743,51296876,51297101,51298058,51298595,51298691,51300066,51 ...
7574291710031024735++NM_00126870580975777chrUn1090249262264403622645371525,86,114,126,249,75,100,264,387,528,22644036,22644105,22644357,22644526,22645122,
58535720700335433591+-NM_05346018261891107chrUn1090249266613107684162,108,156,138,189,417,807,969,109014158,109014951,109017961,109018175,
58535820600335433591+-NM_00104555819843631281chrUn1090249266613107684162,108,156,138,363,591,981,1143,109014158,109014951,109017961,109018175,
10406123000000+-NM_0012855192013527611chrUn1090249265964063359640717184,527,49384209,
58538423400330033537+-NM_00109667816634891407chrUn1090249266613107684162,162,156,138,489,708,1107,1269,109014158,109014942,109017961,109018175,
91523317200136136+-NM_0013696921058399840chrUn10902492643324926433253672279,126,399,714,65699559,65699874,
58532919600335433591+-NM_00103958321264031282chrUn1090249266652107684162,108,156,99,403,631,1021,1183,109014158,109014951,109017961,109018175,
58532919600335433591+-NM_00103958420733501229chrUn1090249266652107684162,108,156,99,350,578,968,1130,109014158,109014951,109017961,109018175,
106811670000000++NM_003038456312741460chrUn10902492663323103633232891186,1274,63323103,

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