Schema for xenoRefSeqAli
  Database: papAnu2    Primary Table: xenoRefSeqAli    Row Count: 362,759   Data last updated: 2020-08-23
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 78int(10) unsigned range Number of bases that match that aren't repeats
misMatches 9int(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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NR_033089varchar(255) values Query sequence name
qSize 88int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 87int(10) unsigned range Alignment end position in query
tName AHZZ01115065varchar(255) values Target sequence name
tSize 44055int(10) unsigned range Target sequence size
tStart 16592int(10) unsigned range Alignment start position in target
tEnd 16679int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 87,longblob   Size of each block
qStarts 0,longblob   Start of each block in query.
tStarts 16592,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)
      papAnu2.all_est.qName (via xenoRefSeqAli.qName)
      papAnu2.all_mrna.qName (via xenoRefSeqAli.qName)
      papAnu2.refGene.name (via xenoRefSeqAli.qName)
      papAnu2.refSeqAli.qName (via xenoRefSeqAli.qName)
      papAnu2.xenoMrna.qName (via xenoRefSeqAli.qName)
      papAnu2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      papAnu2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585789000000++NR_03308988087AHZZ01115065440551659216679187,0,16592,
585826000000++NR_02990988088AHZZ01115065440551659216680188,0,16592,
585808000000++NR_02991088088AHZZ01115065440551659216680188,0,16592,
585862000000++NR_03251088088AHZZ01115065440551659216680188,0,16592,
585748000000++NR_10523382082AHZZ01115065440551659716679182,0,16597,
585758000000++NR_03227383083AHZZ01115065440551659716680183,0,16597,
585567000000++NR_04940463063AHZZ01115065440551660716670163,0,16607,
1512567710261111275158110+-NR_152239304583034chr617443952882606670827676791393,20,29,171,451,931,30,63,48,166,261,148,488,8,101,122,186,360,812,1744,1810,1919,1968,2135,2397,2546,91671849,91679227,91679247,91830000,91830171,91830622,91831553,91831619,91831729,91831777,91831943,91832222,91832370,
58557211800110668632+-NM_00104635418479001696AHZZ011183132873310790201127134,84,138,84,4,213,33,900,1034,1118,1256,1340,1344,1663,8621,12266,13188,13327,13487,17591,17910,
585549106000058526+-NM_00119167615998791534AHZZ011183132873310929201106132,88,139,79,4,213,879,1011,1099,1238,1317,1321,8623,12266,13192,13332,13487,17591,

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