Schema for xenoRefSeqAli
  Database: dp2    Primary Table: xenoRefSeqAli    Row Count: 250,169   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 589smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 89int(10) unsigned range Number of bases that match that aren't repeats
misMatches 58int(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_001364951varchar(255) values Query sequence name
qSize 3889int(10) unsigned range Query sequence size
qStart 1352int(10) unsigned range Alignment start position in query
qEnd 1499int(10) unsigned range Alignment end position in query
tName Contig4055_Contig7066varchar(255) values Target sequence name
tSize 827651int(10) unsigned range Target sequence size
tStart 555158int(10) unsigned range Alignment start position in target
tEnd 555305int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 147,longblob   Size of each block
qStarts 1352,longblob   Start of each block in query.
tStarts 555158,longblob   Start of each block in target.

Connected Tables and Joining Fields
        dp2.all_est.qName (via xenoRefSeqAli.qName)
      dp2.all_mrna.qName (via xenoRefSeqAli.qName)
      dp2.xenoMrna.qName (via xenoRefSeqAli.qName)
      dp2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      dp2.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
5898958000000++NM_001364951388913521499Contig4055_Contig70668276515551585553051147,1352,555158,
5926183060053605479+-NM_00136488318252901574Contig4922_Contig38183539663104517310465766207,117,42,273,51,234,290,545,881,962,1238,1340,2493087,2493339,2493732,2493813,2494154,2494256,
737570021003322878+-NM_001292435179460242Contig1006_Contig94336473742201325161419,18,24,21,60,79,167,221,3322213,3632907,3644886,3645152,
7386100026894349642+-NM_001290350359718022587Contig1006_Contig94336473742201351939530,12,21,16,17,1802,2513,2525,2554,2570,3295435,3322217,3323008,3644822,3645156,
7386100026894349642+-NM_001290351358817932578Contig1006_Contig94336473742201351939530,12,21,16,17,1793,2504,2516,2545,2561,3295435,3322217,3323008,3644822,3645156,
7386100026894349642+-NM_001290353349517002485Contig1006_Contig94336473742201351939530,12,21,16,17,1700,2411,2423,2452,2468,3295435,3322217,3323008,3644822,3645156,
7386100026894349642+-NM_009554358517902575Contig1006_Contig94336473742201351939530,12,21,16,17,1790,2501,2513,2542,2558,3295435,3322217,3323008,3644822,3645156,
92223200435101275569++NR_1352933816308597Contig1006_Contig9433647374220412780271218,22,15,18,26,33,25,12,7,24,27,27,308,328,350,375,393,419,452,477,489,508,532,570,2204,2462,2538,324346,407057,754793,760729,761068,762990,762997,1153468,1278000,
58588010300211232231340++NR_12437124061242339Contig1006_Contig94336473748541108642759,27,5,17,53,9,24,45,43,51,42,12,48,15,71,77,48,12,20,21,63,46,34,11,49,24,57,124,315,352,357,383,452,471,501,581,628,699,1027,1057,1115,1238,1371,1667,1788,1877,1897,1930,2026,2072,2106,2184,2233,2282,8541,8654,8697,8703,8753,8870,8881,8949,9027,9070,9121,9231,9263,9346,9397,9516,9727,9848,9932,10452,10483,10613,10660,10695,107 ...
585366380054567579+-NR_12437293137897Contig1006_Contig94336473741358814571854,51,79,16,36,71,18,79,37,195,246,537,568,651,722,818,3632803,3632956,3633008,3633436,3633479,3633575,3633651,3633707,

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