Schema for xenoMrna
  Database: caePb2    Primary Table: xenoMrna    Row Count: 3,395,844   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 97int(10) unsigned Number of bases that match that aren't repeats
misMatches 56int(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 54int(10) unsigned Number of bases inserted in query
tNumInsert 1int(10) unsigned Number of inserts in target
tBaseInsert 36int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName HP574380varchar(255) Query sequence name
qSize 1482int(10) unsigned Query sequence size
qStart 1077int(10) unsigned Alignment start position in query
qEnd 1284int(10) unsigned Alignment end position in query
tName chrUnvarchar(255) Target sequence name
tSize 194283334int(10) unsigned Target sequence size
tStart 10351int(10) unsigned Alignment start position in target
tEnd 10540int(10) unsigned Alignment end position in target
blockCount 2int(10) unsigned Number of blocks in alignment
blockSizes 72,81,longblob Size of each block
qStarts 1077,1203,longblob Start of each block in query.
tStarts 10351,10459,longblob Start of each block in target.

Connected Tables and Joining Fields
        caePb2.all_est.qName (via xenoMrna.qName)
      caePb2.all_mrna.qName (via xenoMrna.qName)
      caePb2.xenoRefFlat.name (via xenoMrna.qName)
      caePb2.xenoRefGene.name (via xenoMrna.qName)
      caePb2.xenoRefSeqAli.qName (via xenoMrna.qName)
      hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585975600154136++HP574380148210771284chrUn1942833341035110540272,81,1077,1203,10351,10459,
58597740002082267512++X8608922642951918chrUn1942833341848220391915,96,105,4,13,822,135,120,87,295,370,490,660,665,706,1555,1699,1831,18482,18501,18675,18931,18935,19083,19976,20175,20304,
58591341102062075546++L059181771391590chrUn1942833341850120391796,105,69,822,36,117,99,39,159,299,375,1224,1371,1491,18501,18675,18900,19083,19976,20175,20292,
58594940502051745516++X8608829912611809chrUn1942833341850120391696,105,834,126,123,90,261,381,588,1455,1587,1719,18501,18675,19074,19985,20172,20301,
58545324402014051651++X8609120522571379chrUn1942833341852819896269,648,257,731,18528,19248,
58589240202061956537++AY15474320532511760chrUn1942833341854020391757,102,126,687,135,120,87,251,332,539,683,1397,1541,1673,18540,18675,19074,19218,19976,20175,20304,
5856528000000++AF1010632185405498chrUn1942833341867518768193,405,18675,
5856330000000++U224592095288381chrUn1942833341867518768193,288,18675,
5856936000000++AJ0050043250491596chrUn19428333418675187801105,491,18675,
5851155900182511017++AJ00493624134411440chrUn19428333418675198662105,69,441,1371,18675,19797,

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