Schema for xenoRefSeqAli
  Database: apiMel2    Primary Table: xenoRefSeqAli    Row Count: 99,689   Data last updated: 2020-08-17
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 2186smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 278int(10) unsigned range Number of bases that match that aren't repeats
misMatches 136int(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 177int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 1492int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_067359varchar(255) values Query sequence name
qSize 849int(10) unsigned range Query sequence size
qStart 18int(10) unsigned range Alignment start position in query
qEnd 609int(10) unsigned range Alignment end position in query
tName GroupUnvarchar(255) values Target sequence name
tSize 321143811int(10) unsigned range Target sequence size
tStart 209911352int(10) unsigned range Alignment start position in target
tEnd 209913258int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 45,369,longblob   Size of each block
qStarts 18,240,longblob   Start of each block in query.
tStarts 111230553,111232090,longblob   Start of each block in target.

Connected Tables and Joining Fields
        apiMel2.all_est.qName (via xenoRefSeqAli.qName)
      apiMel2.all_mrna.qName (via xenoRefSeqAli.qName)
      apiMel2.xenoMrna.qName (via xenoRefSeqAli.qName)
      apiMel2.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
218627813600117711492+-NM_06735984918609GroupUn321143811209911352209913258245,369,18,240,111230553,111232090,
58937717500164211100+-NM_00137573724851211315Group898283926418706435222459,93,121,1222,9184870,9186429,
5855753340032046813++NM_00113963619971551268Group125433307538371057150,81,131,107,146,174,120,155,314,497,628,735,881,1148,5383,5646,5979,6193,6407,6627,6985,
628717339003486414767+-NM_00111271130141781720Group15732607756884605704283554,72,333,459,138,178,232,682,1021,1582,1621794,1632040,1636356,1636698,1637479,
5856012290052687877++NM_00111081623271651263Group125433307538970968144,81,131,109,17,177,60,111,165,339,501,632,861,882,1092,1152,5389,5667,5979,6193,6529,6624,6837,6985,
593399204001392304+-NM_0203072322224866Group138846036106682910677363132,156,315,224,356,551,7778300,7778527,7778892,
60430225300199199+-NM_00022023334001054Group148017760254675125474052321,234,400,820,5470355,5470775,
58548917100544761056++NM_00107523521461541261Group125433307538971057144,60,131,109,18,78,120,154,328,490,621,850,871,1141,5389,5667,5979,6193,6529,6624,6985,
7817947490073191125639+-NM_00432034931813043Group1289666245750902577908412120,84,383,487,132,177,444,219,131,153,98,115,181,319,403,786,1411,1621,1840,2284,2504,2641,2830,2928,3187540,3211252,3212502,3212975,3213683,3213893,3214112,3214661,3214966,3215181,3215438,3215607,
5855092290043696978++NM_01698619542421349Group125433307538971057144,60,135,141,78,60,120,242,416,578,818,959,1169,1229,5389,5667,5979,6409,6624,6837,6985,

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