Schema for xenoRefSeqAli
  Database: criGri1    Primary Table: xenoRefSeqAli    Row Count: 552,644   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 82int(10) unsigned Number of bases that match that aren't repeats
misMatches 9int(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 714int(10) unsigned Number of bases inserted in query
tNumInsert 1int(10) unsigned Number of inserts in target
tBaseInsert 4334int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_053679varchar(255) Query sequence name
qSize 3437int(10) unsigned Query sequence size
qStart 1566int(10) unsigned Alignment start position in query
qEnd 2371int(10) unsigned Alignment end position in query
tName AMDS01010037varchar(255) Target sequence name
tSize 6240int(10) unsigned Target sequence size
tStart 489int(10) unsigned Alignment start position in target
tEnd 4914int(10) unsigned Alignment end position in target
blockCount 2int(10) unsigned Number of blocks in alignment
blockSizes 52,39,longblob Size of each block
qStarts 1566,2332,longblob Start of each block in query.
tStarts 1326,5712,longblob Start of each block in target.

Connected Tables and Joining Fields
        criGri1.all_est.qName (via xenoRefSeqAli.qName)
      criGri1.all_mrna.qName (via xenoRefSeqAli.qName)
      criGri1.refGene.name (via xenoRefSeqAli.qName)
      criGri1.refSeqAli.qName (via xenoRefSeqAli.qName)
      criGri1.xenoMrna.qName (via xenoRefSeqAli.qName)
      criGri1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      criGri1.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
58582900171414334+-NM_053679343715662371AMDS0101003762404894914252,39,1566,2332,1326,5712,
58569230011441487++NM_0261982864711947AMDS01010037624043374916251,41,711,906,4337,4875,
585316850033253438++NM_15374924895341260AMDS0101819813704861325596,5,6,13,281,534,635,641,647,979,486,590,595,602,1044,
585181580013291443++NR_0365601365256824AMDS0101819813705551237245,194,256,630,555,1043,
58521236000000++NM_0010174681202655903AMDS010181981370104312911248,655,1043,
7424713100216893108616+-NM_102777569226814748KE379478430885518856211994615472,75,131,100,2681,4226,4517,4648,2314240,2405771,2422414,2423134,
7367326100529711234708+-NM_12787118463211552KE379431469870369382725801286,4,108,96,54,90,106,107,78,150,16,39,321,407,411,519,621,726,816,922,1029,1128,1440,1513,197290,197399,201287,203552,204160,207566,211842,214521,216916,217773,363053,432893,
910030021064788190+-NR_13258916039281137KE382219228704714035062191799522,24,17,19,21,928,1044,1080,1097,1116,95248,464969,535887,535907,883520,
5856321000024392++NR_1037802154318402AMDS01099915452393492139397329,40,15,318,347,387,34921,35415,39382,
5856321000024392++NR_1037812046318402AMDS01099915452393492139397329,40,15,318,347,387,34921,35415,39382,

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