Schema for xenoRefSeqAli
  Database: oryCun2    Primary Table: xenoRefSeqAli    Row Count: 345,704   Data last updated: 2020-08-19
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 804smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 8215int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1295int(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 19int(10) unsigned range Number of inserts in query
qBaseInsert 731int(10) unsigned range Number of bases inserted in query
tNumInsert 23int(10) unsigned range Number of inserts in target
tBaseInsert 4405int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_002373varchar(255) values Query sequence name
qSize 10266int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 10241int(10) unsigned range Alignment end position in query
tName chr17varchar(255) values Target sequence name
tSize 85008467int(10) unsigned range Target sequence size
tStart 28723917int(10) unsigned range Alignment start position in target
tEnd 28737832int(10) unsigned range Alignment end position in target
blockCount 30int(10) unsigned range Number of blocks in alignment
blockSizes 93,83,137,1387,412,1756,532...longblob   Size of each block
qStarts 0,93,176,313,1820,2235,4006...longblob   Start of each block in query.
tStarts 56270635,56273501,56273841,...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)
      oryCun2.all_est.qName (via xenoRefSeqAli.qName)
      oryCun2.all_mrna.qName (via xenoRefSeqAli.qName)
      oryCun2.refGene.name (via xenoRefSeqAli.qName)
      oryCun2.refSeqAli.qName (via xenoRefSeqAli.qName)
      oryCun2.xenoMrna.qName (via xenoRefSeqAli.qName)
      oryCun2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      oryCun2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
804821512950019731234405+-NM_00237310266010241chr178500846728723917287378323093,83,137,1387,412,1756,532,49,101,199,952,386,66,931,895,223,262,79,11,59,72,43,146,32,20,5,139,62,81,297,0,93,176,313,1820,2235,4006,4540,4619,5003,5264,6219,6605,6671,7605,8500,8723,8999,9123,9140,9242,9314,9387,9536,9576,9597,9661, ...56270635,56273501,56273841,56274174,56275657,56276069,56277825,56278362,56278441,56278978,56279239,56280191,56280583,56280652,56 ...
151475123500136136+-NM_01501556042181240chr11948507571218431221218441442263,723,218,517,73006613,73006912,
585924188001787798++NM_00101197613501831302chr119485075720479293899111,135,75,145,101,68,142,163,172,183,301,436,511,656,757,825,967,1130,20479,21027,23096,23882,24126,25314,26223,27617,29217,
58527714900451047871++NM_00110003713633921328chr11948507572108129378578,42,60,84,162,392,578,686,1004,1166,21081,23912,24119,27617,29216,
58563911600444961112++NM_001035422130661210chr11948507575150753374818,7,90,32,359,155,58,36,6,24,31,272,304,699,1112,1174,51507,51535,51544,52440,52478,52885,53280,53338,
63032964000036738++NM_001368255143251444chrUn00066663442595341859605494153,67,92,81,51,204,271,363,5953418,5954277,5960091,5960468,
58515281900058051615544+-NM_0011066592596392562chr119485075757679749411764,175,187,88,80,94,95,59,120,93,123,108,119,206,15,11,81,39,105,280,467,555,635,729,824,883,1004,1097,1220,1328,1447,1718,2218,2481,194775816,194776640,194780609,194784223,194784632,194784875,194785420,194786541,194786991,194788394,194791162,194791393,19479159 ...
58517912030057591715299+-NM_001133650284902753chr119485075757680749731895,178,187,88,80,94,95,59,119,93,123,108,119,196,137,93,45,85,0,95,273,460,548,628,722,817,876,997,1090,1213,1321,1440,1671,2248,2614,2668,194775784,194776637,194780609,194784223,194784632,194784875,194785420,194786541,194786991,194788394,194791162,194791393,19479159 ...
58515671880039331715518+-NM_027297523722690chr1194850757577227499518117,178,187,88,80,94,95,59,121,93,123,108,119,200,12,15,27,39,2,119,297,484,572,652,746,841,900,1021,1114,1237,1345,1464,1698,1710,1735,2651,194775762,194776637,194780609,194784223,194784632,194784875,194785420,194786541,194786991,194788394,194791162,194791393,19479159 ...
1696299800906159901402267++NM_001354574141936514184chr1194850757241227062553293310840,18,54,39,69,96,81,71,159,1930,37,53,128,14,53,132,88,60,31,104,26,228,69,63,57,45,12,9,14,114,54,72,31,93,29,39,41,43,75,29,5 ...65,241,268,410,553,678,776,873,944,1103,3033,3071,3128,3259,3275,3328,3461,3550,3618,3649,3756,3783,4031,4140,4204,4554,4684,481 ...24122706,24122862,24122888,24123037,24123188,24396065,24719056,24943323,25157427,25519622,25521553,25521590,25521643,25521771,25 ...

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