Schema for xenoRefSeqAli
  Database: pteVam1    Primary Table: xenoRefSeqAli    Row Count: 528,338   Data last updated: 2020-08-20
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 1353int(10) unsigned Number of bases that match that aren't repeats
misMatches 185int(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 2int(10) unsigned Number of inserts in query
qBaseInsert 88int(10) unsigned Number of bases inserted in query
tNumInsert 8int(10) unsigned Number of inserts in target
tBaseInsert 94649int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_001131233varchar(255) Query sequence name
qSize 2177int(10) unsigned Query sequence size
qStart 84int(10) unsigned Alignment start position in query
qEnd 1710int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 1019178int(10) unsigned Target sequence size
tStart 83815int(10) unsigned Alignment start position in target
tEnd 180002int(10) unsigned Alignment end position in target
blockCount 10int(10) unsigned Number of blocks in alignment
blockSizes 71,228,469,264,54,124,140,8...longblob Size of each block
qStarts 84,155,383,852,1126,1180,13...longblob Start of each block in query.
tStarts 839176,866974,877258,877728...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)
      pteVam1.all_mrna.qName (via xenoRefSeqAli.qName)
      pteVam1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      pteVam1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73135318500288894649+-NM_0011312332177841710scaffold_01019178838151800021071,228,469,264,54,124,140,83,43,62,84,155,383,852,1126,1180,1304,1444,1527,1648,839176,866974,877258,877728,877992,878776,934966,935107,935197,935301,
7387518500111556829+-NM_001106010131631074scaffold_01019178840021418916441,265,51,124,110,69,3,444,720,771,895,1005,877287,877729,877995,878776,934996,935107,
73110717900673966917+-NM_00117311916711121471scaffold_010191788400315220610230,380,6,7,49,249,32,125,139,69,112,342,726,736,744,811,1097,1138,1263,1402,866972,877258,877641,877648,877660,877728,878004,878775,934966,935106,
73124915500110694581+-NM_0011912771892201434scaffold_0101917884004179989858,228,470,260,57,124,140,67,20,78,306,776,1046,1103,1227,1367,839189,866974,877258,877729,877989,878776,934966,935107,
58656526800662588861+-NM_12436924673731831scaffold_1099260376170314180008954,144,39,14,120,72,180,111,99,373,448,778,823,928,1324,1441,1621,1732,80368,81113,82761,82898,83493,86937,88254,89291,89963,
5855724000000++NM_122306287619832064scaffold_10452632518793388014181,1983,87933,
73333162001702367551+-NM_00102069315492051402scaffold_01019178840991521454171,6,204,114,205,376,382,1288,867033,874125,877266,934965,
5851098210000024170++NM_001192257130801308scaffold_62959103742581480593121,223,964,0,121,344,42581,44688,47095,
73702400002329486++NM_027895282625662660scaffold_0101917896813426393339,4,51,2566,2605,2609,96813,96908,426342,
58645298004579411350+-NM_00107897018332291358scaffold_010191781403061522065232,66,111,54,87,229,605,998,1208,1271,866972,877404,877798,877992,878785,

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