Schema for xenoRefSeqAli
  Database: rn6    Primary Table: xenoRefSeqAli    Row Count: 223,156   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 970smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 164int(10) unsigned range Number of bases that match that aren't repeats
misMatches 25int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 51int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 1932int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NR_169091varchar(255) values Query sequence name
qSize 381int(10) unsigned range Query sequence size
qStart 140int(10) unsigned range Alignment start position in query
qEnd 380int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 282763074int(10) unsigned range Target sequence size
tStart 50584566int(10) unsigned range Alignment start position in target
tEnd 50586687int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 54,135,longblob   Size of each block
qStarts 140,245,longblob   Start of each block in query.
tStarts 50584566,50586552,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)
      rn6.all_est.qName (via xenoRefSeqAli.qName)
      rn6.all_mrna.qName (via xenoRefSeqAli.qName)
      rn6.refGene.name (via xenoRefSeqAli.qName)
      rn6.refSeqAli.qName (via xenoRefSeqAli.qName)
      rn6.xenoMrna.qName (via xenoRefSeqAli.qName)
      rn6.xenoRefFlat.name (via xenoRefSeqAli.qName)
      rn6.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
970164250015111932++NR_169091381140380chr12827630745058456650586687254,135,140,245,50584566,50586552,
970156230015011942++NR_169092370140369chr12827630745058456650586687244,135,140,234,50584566,50586552,
59018052780027749083+-NR_0380522581122172chr12827630747445467557125217,486,297,125,958,12,280,792,1089,1214,282007362,282010874,282011386,282015743,282017570,
1732977243011223292751135++NM_0013826963657973657chr1511124623910574356710579793335142,201,142,76,150,136,29,127,138,64,9,9,78,69,242,79,27,35,126,27,144,148,36,76,33,39,96,76,63,37,47,279,80,36,135,97,239,440,582,703,853,996,1027,1155,1298,1363,1372,1414,1492,1561,1804,1893,1929,1964,2134,2161,2309,2457,2536,2622,2664,2712,2 ...105743567,105753395,105756784,105756927,105764133,105795138,105795275,105795304,105795431,105795570,105795636,105795646,10579569 ...
17333242720112334031106113++NM_00138266946206734620chr1511124623910568821310579793339191,142,201,142,76,55,154,36,95,131,29,127,138,64,9,9,78,69,242,79,27,35,126,27,144,148,36,76,33,39,96,76,63,37,47,279,80,36,135 ...673,875,1017,1218,1360,1481,1536,1690,1726,1821,1959,1990,2118,2261,2326,2335,2377,2455,2524,2767,2856,2892,2927,3097,3124,3272, ...105688213,105743567,105753395,105756784,105756927,105763420,105764134,105770991,105772308,105795143,105795275,105795304,10579543 ...
59017352810012429157+-NR_104384245762046chr12827630747445467557193282,764,970,6,288,1076,282007355,282010881,282017558,
732151354003141666520+-NM_001100616306242650chr12827630747445678135927225,156,40,803,222,124,935,4,271,501,566,1369,1591,1715,281949482,281952322,281952552,282010880,282012596,282015749,282017572,
732109292005107666483+-NM_0011046252547392547chr12827630747445948134788132,175,41,600,203,218,124,908,39,190,422,484,1087,1290,1515,1639,281949596,281952323,281952555,282010880,282011480,282012596,282013995,282017572,
732147303004100666473+-NM_001081448255002550chr12827630747445948135178142,150,103,802,227,116,423,487,0,202,388,491,1294,1521,1637,2063,281949557,281952329,281952515,282010881,282012597,282015752,282017570,282017993,
590208630400314878652+-NM_001104621254702538chr12827630747446037556459189,4,104,42,600,203,225,124,899,0,189,193,423,484,1087,1290,1515,1639,282007429,282007819,282010186,282010419,282010880,282011480,282012596,282015749,282017572,

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