Schema for xenoRefSeqAli
  Database: hg18    Primary Table: xenoRefSeqAli    Row Count: 172,638   Data last updated: 2020-08-21
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 1102int(10) unsigned range Number of bases that match that aren't repeats
misMatches 155int(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 3int(10) unsigned range Number of inserts in query
qBaseInsert 170int(10) unsigned range Number of bases inserted in query
tNumInsert 8int(10) unsigned range Number of inserts in target
tBaseInsert 8945int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001105406varchar(255) values Query sequence name
qSize 1952int(10) unsigned range Query sequence size
qStart 190int(10) unsigned range Alignment start position in query
qEnd 1617int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 247249719int(10) unsigned range Target sequence size
tStart 4555int(10) unsigned range Alignment start position in target
tEnd 14757int(10) unsigned range Alignment end position in target
blockCount 11int(10) unsigned range Number of blocks in alignment
blockSizes 157,112,147,137,131,208,49,...longblob   Size of each block
qStarts 190,347,459,606,743,874,124...longblob   Start of each block in query.
tStarts 247234962,247241477,2472417...longblob   Start of each block in target.

Connected Tables and Joining Fields
        hg18.all_est.qName (via xenoRefSeqAli.qName)
      hg18.all_mrna.qName (via xenoRefSeqAli.qName)
      hg18.refGene.name (via xenoRefSeqAli.qName)
      hg18.refSeqAli.qName (via xenoRefSeqAli.qName)
      hg18.xenoEst.qName (via xenoRefSeqAli.qName)
      hg18.xenoMrna.qName (via xenoRefSeqAli.qName)
      hg18.xenoRefFlat.name (via xenoRefSeqAli.qName)
      hg18.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
585110215500317088945+-NM_00110540619521901617chr124724971945551475711157,112,147,137,131,208,49,110,67,10,129,190,347,459,606,743,874,1245,1295,1405,1472,1488,247234962,247241477,247241795,247242114,247242488,247242796,247243902,247243951,247244818,247245025,247245035,
58578631800428899051+-NM_0010168542084921484chr124724971945581471310113,112,143,145,132,141,30,109,71,108,92,205,317,460,605,743,890,1160,1269,1376,247235006,247241477,247241795,247242110,247242492,247242807,247242951,247243952,247244818,247245053,
585785298005309109072+-NM_0010951432053801472chr124724971945581471311113,112,75,47,145,132,141,30,109,71,108,80,193,305,401,448,593,731,878,1148,1257,1364,247235006,247241477,247241795,247241891,247242110,247242492,247242807,247242951,247243952,247244818,247245053,
58571825300644899193+-NM_00111045017581111530chr124724971945581472210123,149,141,132,138,27,109,71,57,24,111,343,492,633,771,921,1200,1309,1437,1506,247234997,247241793,247242114,247242492,247242807,247242951,247243952,247244818,247245065,247245137,
585920271004246129006+-NM_0010062452066221459chr124724971945581475513155,115,144,141,132,144,42,11,4,109,72,23,99,22,177,292,436,577,709,862,1084,1095,1129,1238,1310,1360,247234964,247241477,247241798,247242114,247242492,247242801,247242951,247243908,247243920,247243952,247244818,247245030,24724506 ...
585103817800321998982+-NM_0010377572887851520chr124724971945581475611156,112,147,141,69,60,195,49,110,72,105,85,241,353,500,641,710,770,1151,1201,1311,1415,247234963,247241477,247241795,247242114,247242492,247242564,247242801,247243902,247243951,247244818,247245056,
5851053188003194118957+-NM_0011273901885741509chr124724971945581475613156,112,147,141,69,59,5,192,48,109,72,11,120,74,230,342,489,630,699,758,763,1140,1191,1300,1372,1389,247234963,247241477,247241795,247242114,247242492,247242564,247242679,247242805,247243902,247243952,247244818,247245030,24724504 ...
585103918200321998982+-NM_0268332904971537chr124724971945581476111161,112,147,141,69,60,195,49,110,72,105,97,258,370,517,658,727,787,1168,1218,1328,1432,247234958,247241477,247241795,247242114,247242492,247242564,247242801,247243902,247243951,247244818,247245056,
585585100012041545+-NM_00103409911240799chr124724971924800259402358,237,0,562,247223779,247224682,
5856262530000110497++NM_0010003679330879chr124724971942314536902157,722,0,157,42314,52968,

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