Schema for xenoRefSeqAli
  Database: ornAna1    Primary Table: xenoRefSeqAli    Row Count: 585,080   Data last updated: 2020-08-22
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 342int(10) unsigned Number of bases that match that aren't repeats
misMatches 65int(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 105int(10) unsigned Number of bases inserted in query
tNumInsert 6int(10) unsigned Number of inserts in target
tBaseInsert 164719int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001075404varchar(255) Query sequence name
qSize 1623int(10) unsigned Query sequence size
qStart 624int(10) unsigned Alignment start position in query
qEnd 1136int(10) unsigned Alignment end position in query
tName Contig1000varchar(255) Target sequence name
tSize 224754int(10) unsigned Target sequence size
tStart 35754int(10) unsigned Alignment start position in target
tEnd 200880int(10) unsigned Alignment end position in target
blockCount 7int(10) unsigned Number of blocks in alignment
blockSizes 38,3,54,108,12,99,93,longblob Size of each block
qStarts 624,662,665,782,890,944,1043,longblob Start of each block in query.
tStarts 35754,35843,68710,194293,19...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)
      ornAna1.all_est.qName (via xenoRefSeqAli.qName)
      ornAna1.all_mrna.qName (via xenoRefSeqAli.qName)
      ornAna1.refGene.name (via xenoRefSeqAli.qName)
      ornAna1.refSeqAli.qName (via xenoRefSeqAli.qName)
      ornAna1.xenoMrna.qName (via xenoRefSeqAli.qName)
      ornAna1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      ornAna1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73342650021056164719++NM_00107540416236241136Contig100022475435754200880738,3,54,108,12,99,93,624,662,665,782,890,944,1043,35754,35843,68710,194293,197661,198238,200787,
73332620021175164731++NM_00101417214266491160Contig100022475435755200880637,3,54,108,99,93,649,686,689,806,968,1067,35755,35875,68710,194293,198238,200787,
73190500022274164847++NM_00109431011435361003Contig100022475435765200852527,3,54,93,63,536,563,566,683,940,35765,35875,68710,194293,200789,
73144330013183164938++NM_0010970521066484979Contig100022475435765200880427,3,54,93,484,511,514,886,35765,35875,68710,200787,
58521990002752245++NM_00101136120577891173Contig10002213535421096396,84,129,789,954,1044,542,787,967,
58522188002782245++NM_00108660219447311118Contig10002213535421096396,84,129,731,896,989,542,787,967,
5852108700327336507+-NM_0011625211010221791Contig1001116865100178054105,39,27,126,221,373,497,665,9060,11717,11841,15738,
5852268900324936483+-NM_001106602997196760Contig1001116865100778054108,60,27,120,196,348,472,640,9060,11717,11841,15738,
5852068500327336507+-NM_0137641110221785Contig1001116865100778054105,39,27,120,221,373,497,665,9060,11717,11841,15738,
58522443000023254+-NM_001363102642733333600Contig2352145645824103368,55,144,3333,3401,3456,461,3781,3838,

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