Schema for xenoMrna
  Database: ci2    Primary Table: xenoMrna    Row Count: 2,409,761   Data last updated: 2020-08-21
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 404int(10) unsigned Number of bases that match that aren't repeats
misMatches 280int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 2int(10) unsigned Number of inserts in query
qBaseInsert 144int(10) unsigned Number of bases inserted in query
tNumInsert 4int(10) unsigned Number of inserts in target
tBaseInsert 2200int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName AB590998varchar(255) Query sequence name
qSize 2108int(10) unsigned Query sequence size
qStart 1026int(10) unsigned Alignment start position in query
qEnd 1854int(10) unsigned Alignment end position in query
tName scaffold_867varchar(255) Target sequence name
tSize 19282int(10) unsigned Target sequence size
tStart 201int(10) unsigned Alignment start position in target
tEnd 3085int(10) unsigned Alignment end position in target
blockCount 5int(10) unsigned Number of blocks in alignment
blockSizes 69,79,33,200,303,longblob Size of each block
qStarts 1026,1203,1282,1315,1551,longblob Start of each block in query.
tStarts 201,296,832,1288,2782,longblob Start of each block in target.

Connected Tables and Joining Fields
        ci2.all_est.qName (via xenoMrna.qName)
      ci2.all_mrna.qName (via xenoMrna.qName)
      ci2.refGene.name (via xenoMrna.qName)
      ci2.refSeqAli.qName (via xenoMrna.qName)
      ci2.xenoRefFlat.name (via xenoMrna.qName)
      ci2.xenoRefGene.name (via xenoMrna.qName)
      ci2.xenoRefSeqAli.qName (via xenoMrna.qName)
      hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58540428000214442200++AB590998210810261854scaffold_867192822013085569,79,33,200,303,1026,1203,1282,1315,1551,201,296,832,1288,2782,
585300000000++GV17881932030scaffold_847110109741004130,0,974,
585300000000++GV19342332131scaffold_847110109741004130,1,974,
585300000000++GV19342532131scaffold_847110109741004130,1,974,
5851685100162134++JI97892432451276scaffold_78571115117645117998387,106,26,51,144,250,117645,117735,117972,
5852106300001131++JL7952763869282scaffold_785711151176451180492196,77,9,205,117645,117972,
5851490730001024451964755+-AY74766760462464911chr01p622011214446814212042,157,77,78,72,99,150,87,84,96,225,6,171,177,171,120,156,122,7,123,246,300,457,639,867,1104,1335,1485,1971,2820,3459,3684,3690,3996,4173,4344,4503,4659,4781,4788,6138691,6140034,6140732,6141846,6142455,6143588,6144760,6145426,6147724,6150490,6154022,6154440,6154591,6155650,6156885,6157593, ...
58537418700281548121+-AK34392520692644chr01p62201121450363185693,120,153,123,6,66,2,134,296,449,572,578,6156927,6157593,6158076,6158517,6186992,6205543,
5902363500268621505+-AH00175099639996scaffold_597508906573076590833162,17,92,39,599,904,91807,93288,93491,
585771900001131+-JL648514369104200scaffold_78571115115194115421255,41,104,159,455694,455880,

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