Schema for xenoRefSeqAli
  Database: anoGam1    Primary Table: xenoRefSeqAli    Row Count: 129,635   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 113int(10) unsigned range Number of bases that match that aren't repeats
misMatches 55int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 510int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 52168int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001018132varchar(255) values Query sequence name
qSize 1103int(10) unsigned range Query sequence size
qStart 138int(10) unsigned range Alignment start position in query
qEnd 816int(10) unsigned range Alignment end position in query
tName chr2Lvarchar(255) values Target sequence name
tSize 48795086int(10) unsigned range Target sequence size
tStart 9463int(10) unsigned range Alignment start position in target
tEnd 61799int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 33,93,42,longblob   Size of each block
qStarts 138,681,774,longblob   Start of each block in query.
tStarts 48733287,48785393,48785581,longblob   Start of each block in target.

Connected Tables and Joining Fields
        anoGam1.all_est.qName (via xenoRefSeqAli.qName)
      anoGam1.all_mrna.qName (via xenoRefSeqAli.qName)
      anoGam1.xenoMrna.qName (via xenoRefSeqAli.qName)
      anoGam1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      anoGam1.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
58511355001510252168+-NM_0010181321103138816chr2L48795086946361799333,93,42,138,681,774,48733287,48785393,48785581,
7353201660000189++NM_0012993881388413899chr3R5327212519717141197177162432,54,413,845,19717141,19717662,
7353201660000189++NM_1658341256413899chr3R5327212519717141197177162432,54,413,845,19717141,19717662,
5891316300176279+-NM_001173329438168438chr2L487950866150906153633100,10,84,168,268,354,48179723,48179859,48179912,
58913782001931102+-NM_001270831750298610chr2L487950866150906154112135,84,298,526,48179675,48179912,
95012003830088441154532+-NM_00126007346557163143chr2R6272591147904438479605531387,16,105,78,42,24,102,3,72,42,680,167,165,716,1072,1094,1235,1355,1397,1427,1529,1532,1772,2125,2805,2978,14765358,14808405,14808436,14808583,14816654,14816699,14816723,14816850,14819784,14819985,14820257,14821027,14821308,
88714414160033726627+-NM_16872031054342663chr2L487950863963957539642059748,50,70,217,88,1177,207,434,794,844,938,1155,1243,2456,9153027,9153396,9153517,9153701,9153921,9154091,9155304,
590469204003233515242+-NM_13131415963941300chr2L487950867547157706306103,174,120,123,42,111,394,499,673,877,1147,1189,48024456,48024638,48035818,48037713,48040050,48040260,
590362139002348315402+-NM_13131617794481297chr2L48795086754721770624497,176,123,105,448,545,925,1192,48024462,48024636,48037713,48040260,
59346721100490941084+-NM_17795831646202207chr3R5327212510717461073508563,174,225,135,81,620,1421,1715,1955,2126,52198617,52199584,52199878,52200118,52200298,

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