Schema for xenoRefSeqAli
  Database: criGriChoV1    Primary Table: xenoRefSeqAli    Row Count: 463,610   Data last updated: 2020-08-21
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 63int(10) unsigned range Number of bases that match that aren't repeats
misMatches 21int(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_001140904varchar(255) values Query sequence name
qSize 305int(10) unsigned range Query sequence size
qStart 202int(10) unsigned range Alignment start position in query
qEnd 286int(10) unsigned range Alignment end position in query
tName NW_003613580v1varchar(255) values Target sequence name
tSize 8779783int(10) unsigned range Target sequence size
tStart 203366int(10) unsigned range Alignment start position in target
tEnd 203450int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 84,longblob   Size of each block
qStarts 202,longblob   Start of each block in query.
tStarts 8576333,longblob   Start of each block in target.

Connected Tables and Joining Fields
        criGriChoV1.all_est.qName (via xenoRefSeqAli.qName)
      criGriChoV1.all_mrna.qName (via xenoRefSeqAli.qName)
      criGriChoV1.refGene.name (via xenoRefSeqAli.qName)
      criGriChoV1.refSeqAli.qName (via xenoRefSeqAli.qName)
      criGriChoV1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      criGriChoV1.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
5866321000000+-NM_001140904305202286NW_003613580v18779783203366203450184,202,8576333,
5867935000000+-NR_033643583201315NW_003613580v187797832034972036111114,201,8576172,
58757210500147120++NM_001098124192119743NW_003613580v187797833879243886212392,285,19,458,387924,388336,
58759810900375353++NM_0012617281015148930NW_003613580v187797833879243886844392,54,216,45,148,587,661,885,387924,388342,388416,388639,
58537479006128261938+-NM_00100430931638282563NW_003616388v112934133818362097105,66,27,16,24,106,109,828,942,1199,1341,1366,1446,2454,93132,93245,93333,93622,93644,93718,95414,
7529025860631522503297810++NM_152536590325803NW_003613584v16190410227944023808013433,246,11,69,72,540,587,34,96,66,153,156,88,1,49,64,67,69,84,80,100,138,130,43,88,130,154,69,33,18,16,14,32,21,2,62,469,1115,1346,1508,2048,2635,2672,2768,2858,3020,3176,3264,3265,3314,3379,3446,3515,3599,3679,3779,3917,4047,4090,4178,4308 ...2279440,2279497,2280181,2280670,2280889,2281048,2281591,2319807,2319841,2334759,2350176,2350558,2351271,2351382,2353933,2354535, ...
58722497000000++NM_0010302521030254575NW_003613580v187797833879703882911321,254,387970,
58712021300441011011913881++NM_03214430735162993NW_003615229v13205642754912907482064,4,49,106,112,92,67,4,64,15,133,15,108,27,45,39,11,283,84,54,516,580,584,633,739,853,945,1012,1016,1087,1109,1537,1573,2178,2235,2407,2521,2532,2855,2939,275491,276707,277097,279143,281307,282576,286687,287010,288807,288879,288914,289320,289354,289960,289997,290173,290279,290293,29 ...
73771900152171194028++NR_144495205931460719920NW_003613580v18779783510056704180251,45,14607,19875,510056,704135,
59011670000000++NM_12615187882268NW_003613580v187797836906976908831186,82,690697,

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