Schema for xenoRefSeqAli
  Database: danRer7    Primary Table: xenoRefSeqAli    Row Count: 271,761   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 816smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 486int(10) unsigned range Number of bases that match that aren't repeats
misMatches 103int(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 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 3452int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001285477varchar(255) values Query sequence name
qSize 698int(10) unsigned range Query sequence size
qStart 73int(10) unsigned range Alignment start position in query
qEnd 662int(10) unsigned range Alignment end position in query
tName chr20varchar(255) values Target sequence name
tSize 55952140int(10) unsigned range Target sequence size
tStart 30398292int(10) unsigned range Alignment start position in target
tEnd 30402333int(10) unsigned range Alignment end position in target
blockCount 6int(10) unsigned range Number of blocks in alignment
blockSizes 78,72,140,69,149,81,longblob   Size of each block
qStarts 73,151,223,363,432,581,longblob   Start of each block in query.
tStarts 25549807,25549982,25551626,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer7.all_est.qName (via xenoRefSeqAli.qName)
      danRer7.all_mrna.qName (via xenoRefSeqAli.qName)
      danRer7.refGene.name (via xenoRefSeqAli.qName)
      danRer7.refSeqAli.qName (via xenoRefSeqAli.qName)
      danRer7.xenoMrna.qName (via xenoRefSeqAli.qName)
      danRer7.xenoRefFlat.name (via xenoRefSeqAli.qName)
      danRer7.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
816486103000053452+-NM_00128547769873662chr20559521403039829230402333678,72,140,69,149,81,73,151,223,363,432,581,25549807,25549982,25551626,25552450,25553158,25553767,
1228011900435745675++NM_0012855161007189945chr20559521403040516130411235590,99,39,96,75,189,504,615,660,870,30405161,30408550,30408761,30408889,30411160,
947232820022851013116+-NM_001285724377117012991chr2055952140224082572242237811133,105,2,109,68,84,123,110,102,106,63,1701,1834,1939,1941,2050,2340,2424,2547,2657,2759,2928,33529762,33530306,33530489,33532935,33533129,33533744,33537889,33541489,33541677,33541900,33543820,
7408193390071275912886+-NM_0012857282489552488chr2055952140204002542041429810180,108,143,103,141,90,69,129,84,111,55,481,646,789,898,1165,1276,1552,1681,2377,35537842,35541814,35542751,35544190,35544435,35545318,35547848,35548184,35548659,35551775,
5858123220055221120982++NM_05343226461691825Zv9_NA1102570834202553612144,66,81,54,69,117,28,172,4,213,62,124,169,352,418,847,964,1060,1222,1250,1422,1426,1639,1701,3420,4410,5127,13695,14261,15907,16287,19924,20163,20955,22766,25412,
5854111890041143521495++NM_0010077981983121755Zv9_NA110257083441255366111,30,167,112,57,123,12,786,1185,1352,1569,1632,3441,13695,19929,20951,22766,25413,
5857953330045161220967++NM_00103037233542691913Zv9_NA1102570834412553613123,30,84,54,69,118,75,2,170,4,213,65,121,269,464,494,935,1052,1145,1263,1338,1340,1510,1514,1727,1792,3441,4446,5127,13695,14261,15904,16240,16585,19926,20134,20955,22766,25415,
5858693670074081420859++NM_0010964582365751719Zv9_NA1102570834412553615123,96,129,132,3,57,69,84,28,172,4,120,33,65,121,75,207,384,606,738,741,861,987,1116,1144,1316,1320,1500,1533,1598,3441,4380,7176,11187,11366,13692,14261,15940,16287,19924,20134,20955,21135,22766,25415,
5854082040031095521483++NM_00113026023763402047Zv9_NA110257083441255366111,48,167,4,159,123,340,481,1477,1644,1648,1924,3441,4380,19929,20163,20955,25413,
5853611640031185521570++NM_0011927072358151725Zv9_NA110257083441255366111,15,138,75,65,121,15,289,1173,1464,1539,1604,3441,3555,19947,21093,22766,25415,

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