Schema for xenoRefSeqAli
  Database: caePb2    Primary Table: xenoRefSeqAli    Row Count: 276,832   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 1062smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 102int(10) unsigned range Number of bases that match that aren't repeats
misMatches 63int(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 NM_001384464varchar(255) values Query sequence name
qSize 5764int(10) unsigned range Query sequence size
qStart 2298int(10) unsigned range Alignment start position in query
qEnd 2463int(10) unsigned range Alignment end position in query
tName chrUnvarchar(255) values Target sequence name
tSize 194283334int(10) unsigned range Target sequence size
tStart 62602432int(10) unsigned range Alignment start position in target
tEnd 62602597int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 165,longblob   Size of each block
qStarts 2298,longblob   Start of each block in query.
tStarts 62602432,longblob   Start of each block in target.

Connected Tables and Joining Fields
        caePb2.all_est.qName (via xenoRefSeqAli.qName)
      caePb2.all_mrna.qName (via xenoRefSeqAli.qName)
      caePb2.xenoMrna.qName (via xenoRefSeqAli.qName)
      caePb2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      caePb2.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
106210263000000++NM_001384464576422982463chrUn19428333462602432626025971165,2298,62602432,
106210263000000++NM_001384465597125052670chrUn19428333462602432626025971165,2505,62602432,
106210263000000++NM_006434552420582223chrUn19428333462602432626025971165,2058,62602432,
1062775169023114731124749++NM_00126882718152311671chrUn19428333462605189626309051387,108,19,84,48,111,94,99,45,48,23,42,159,231,363,497,516,639,759,873,969,1104,1224,1411,1467,1512,62605189,62607119,62607526,62607551,62610377,62629690,62629801,62630102,62630246,62630393,62630595,62630651,62630746,
123721697023325231098++NM_001026735889168756chrUn1942833348550741785508851496,54,81,105,168,471,531,651,85507417,85508388,85508499,85508746,
648792000000+-NR_07255512948129chrUn19428333483097518309832181,48,185973502,
619304110000000++NM_070999953301715chrUn194283334451599245164061414,301,4515992,
648922000000+-NR_072553119397chrUn19428333483122198312313194,3,185971021,
2001752700110112+-NR_0759071151113chrUn194283334185688148185688262278,24,1,89,8595072,8595162,
6481406000017+-NR_0725621460146chrUn19428333483002418300394294,52,0,94,185982940,185983041,

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