Schema for xenoRefSeqAli
  Database: equCab2    Primary Table: xenoRefSeqAli    Row Count: 314,625   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 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 690int(10) unsigned range Number of bases that match that aren't repeats
misMatches 118int(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 7int(10) unsigned range Number of inserts in query
qBaseInsert 298int(10) unsigned range Number of bases inserted in query
tNumInsert 12int(10) unsigned range Number of inserts in target
tBaseInsert 9260int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001143763varchar(255) values Query sequence name
qSize 1452int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1106int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 185838109int(10) unsigned range Target sequence size
tStart 7029int(10) unsigned range Alignment start position in target
tEnd 17097int(10) unsigned range Alignment end position in target
blockCount 13int(10) unsigned range Number of blocks in alignment
blockSizes 54,24,64,60,74,53,93,64,65,...longblob   Size of each block
qStarts 0,90,177,241,301,423,476,56...longblob   Start of each block in query.
tStarts 7029,7111,11197,11908,12331...longblob   Start of each block in target.

Connected Tables and Joining Fields
        equCab2.all_est.qName (via xenoRefSeqAli.qName)
      equCab2.all_mrna.qName (via xenoRefSeqAli.qName)
      equCab2.refGene.name (via xenoRefSeqAli.qName)
      equCab2.refSeqAli.qName (via xenoRefSeqAli.qName)
      equCab2.xenoMrna.qName (via xenoRefSeqAli.qName)
      equCab2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      equCab2.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
585690118007298129260++NM_001143763145201106chr11858381097029170971354,24,64,60,74,53,93,64,65,126,18,86,27,0,90,177,241,301,423,476,569,635,700,871,933,1079,7029,7111,11197,11908,12331,13298,14079,14420,15299,15446,15687,15877,17070,
585654123005255118167++NM_001280134139211033chr11858381097032159761251,20,52,60,74,53,93,64,67,126,18,99,1,88,190,242,302,424,477,570,634,701,872,934,7032,7111,11209,11908,12331,13298,14079,14420,15297,15446,15687,15877,
5854036900432074244++NM_0011437651462118910chr11858381091119715913864,60,73,56,93,72,18,36,118,182,242,364,420,570,657,874,11197,11908,12331,13298,14082,15293,15462,15877,
58581110300459144218++NM_00103814911081021075chr118583810911197163291564,60,75,48,55,90,64,3,64,75,39,60,90,73,54,102,166,226,301,349,404,494,558,561,625,704,747,855,945,1021,11197,11908,12331,13000,13299,14082,14420,14859,15300,15446,15528,15641,15877,16197,16275,
58546710200525484178++NM_0010250581471116939chr11858381091120915956952,60,75,56,93,72,34,48,79,116,168,228,350,406,556,639,767,860,11209,11908,12331,13298,14082,15293,15458,15656,15877,
896203820012721961++NM_001105128977119431chr13425781674084367540845921357,114,114,119,176,317,40843675,40845338,40845807,
58561912200312293629++NM_00128383313171961059chr118583810911928162981040,71,36,56,90,64,67,126,89,102,196,236,315,358,414,504,568,635,868,957,11928,12331,13004,13298,14082,14420,15297,15446,15877,16196,
585412197005916636862+-NM_00109489127625892114chr118583810929520669917216,48,36,104,55,132,18,589,1507,1591,1648,1752,1843,2096,185771118,185771370,185771454,185807874,185808227,185808402,185808571,
5851390440006810439826+-NM_00113257939011832823chr118583810929521711777132,237,696,27,165,219,354,183,466,1116,1860,2055,2223,2469,185766932,185770348,185770941,185807796,185807823,185807988,185808234,
8842023259001914033131114+-NM_001330454414063691chr134257816739270684393040803381,110,85,180,96,84,133,140,75,108,53,3,57,306,40,45,81,68,48,43,13,24,16,35,9,4,27,57,45,60,23,76,57,6,88,198,283,463,559,644,777,917,992,1100,1153,1156,1213,1524,1564,1617,1786,1867,1976,2026,2331,2367,2387,2422,2432,3128,3160,3 ...3274087,3277056,3278552,3279537,3282486,3285004,3289728,3292334,3294407,3299590,3302076,3302345,3302411,3305957,3306267,3306312, ...

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