Schema for xenoRefSeqAli
  Database: bisBis1    Primary Table: xenoRefSeqAli    Row Count: 468,599   Data last updated: 2017-03-19
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 92int(10) unsigned range Number of bases that match that aren't repeats
misMatches 15int(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_102364varchar(255) values Query sequence name
qSize 3818int(10) unsigned range Query sequence size
qStart 1778int(10) unsigned range Alignment start position in query
qEnd 1885int(10) unsigned range Alignment end position in query
tName JPYT01113629v1varchar(255) values Target sequence name
tSize 678int(10) unsigned range Target sequence size
tStart 302int(10) unsigned range Alignment start position in target
tEnd 409int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 107,longblob   Size of each block
qStarts 1778,longblob   Start of each block in query.
tStarts 269,longblob   Start of each block in target.

Connected Tables and Joining Fields
        bisBis1.refGene.name (via xenoRefSeqAli.qName)
      bisBis1.refSeqAli.qName (via xenoRefSeqAli.qName)
      bisBis1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      bisBis1.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
5859215000000+-NR_102364381817781885JPYT01113629v16783024091107,1778,269,
5859517000000+-NM_207414416718391951JPYT01113629v16783024141112,1839,264,
5859517000000+-NR_102363382715021614JPYT01113629v16783024141112,1502,264,
58576290019113++NM_001260615287327002814JPYT01113749v1355176294221,84,2700,2730,176,210,
58576290019113++NM_001284055293026962810JPYT01113749v1355176294221,84,2696,2726,176,210,
58515270000000++NM_21134890069291JPYT01113763v144402221222,69,0,
58516272000000++NM_00118248493369303JPYT01113763v144402341234,69,0,
5851081400334439+-NM_001265894262724372593JPYT01113931v1529366527539,16,6,18,43,2437,2476,2494,2510,2550,2,42,61,75,120,
585200250041126123++NM_001253862457833623699JPYT01114467v13586354725,33,19,15,14,56,63,3362,3450,3489,3541,3556,3580,3636,6,99,140,193,209,234,291,
585200250041126123++NM_001253863402928133150JPYT01114467v13586354725,33,19,15,14,56,63,2813,2901,2940,2992,3007,3031,3087,6,99,140,193,209,234,291,

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