Schema for xenoRefSeqAli
  Database: felCat8    Primary Table: xenoRefSeqAli    Row Count: 254,234   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 682smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 980int(10) unsigned range Number of bases that match that aren't repeats
misMatches 187int(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 2int(10) unsigned range Number of inserts in query
qBaseInsert 419int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 3015int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_030812varchar(255) values Query sequence name
qSize 1841int(10) unsigned range Query sequence size
qStart 185int(10) unsigned range Alignment start position in query
qEnd 1771int(10) unsigned range Alignment end position in query
tName chrC1varchar(255) values Target sequence name
tSize 222198629int(10) unsigned range Target sequence size
tStart 12740826int(10) unsigned range Alignment start position in target
tEnd 12745008int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 359,756,18,34,longblob   Size of each block
qStarts 185,544,1643,1737,longblob   Start of each block in query.
tStarts 12740826,12743809,12744884,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        felCat8.all_est.qName (via xenoRefSeqAli.qName)
      felCat8.all_mrna.qName (via xenoRefSeqAli.qName)
      felCat8.refGene.name (via xenoRefSeqAli.qName)
      felCat8.refSeqAli.qName (via xenoRefSeqAli.qName)
      felCat8.xenoMrna.qName (via xenoRefSeqAli.qName)
      felCat8.xenoRefFlat.name (via xenoRefSeqAli.qName)
      felCat8.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
68298018700241933015++NM_03081218411851771chrC122219862912740826127450084359,756,18,34,185,544,1643,1737,12740826,12743809,12744884,12744974,
585296610023031664++NM_21373762673460chrA12403802233593837959460,93,171,33,73,154,256,427,35938,36864,37752,37926,
58511512160092961810363++NM_001244284178841667chrA124038022335938476682060,93,171,26,117,155,199,116,211,9,4,8,23,42,6,22,24,14,35,32,4,85,187,358,384,501,656,855,971,1193,1202,1207,1220,1243,1402,1408,1449,1565,1579,1635,35938,36864,37752,37926,39357,40716,42414,45815,46978,47194,47204,47208,47222,47246,47401,47408,47447,47565,47581,47636,
58568217700318269407++NM_00116596822291331174chrA12403802233689447160763,26,119,153,200,115,183,133,376,402,521,675,876,991,36894,37926,39357,40718,42412,45815,46977,
58568017700218169409++NM_20726322261331171chrA12403802233689447160763,26,119,153,198,115,183,133,376,402,521,674,873,988,36894,37926,39357,40718,42414,45815,46977,
58562515900317358612++NM_00119170811281711128chrA124038022337764471606141,26,121,198,115,183,171,330,356,630,830,945,37764,37926,39357,42413,45815,46977,
585791164004176102747+-NM_001034444180731134chrA124038022310257910628111111,104,83,134,120,11,24,167,24,141,36,3,114,218,301,435,592,603,627,798,863,1098,240273942,240274127,240274319,240275020,240276920,240277079,240277092,240277122,240277294,240277360,240277608,
5854451180035452604+-NM_0271591721334951chrA12403802231031141062816111,96,84,132,116,24,334,445,547,632,764,927,240273942,240274127,240274317,240275020,240276918,240277085,
585415109002742553+-NM_0011087931100466997chrA1240380223103189106266596,96,84,132,116,466,562,664,749,881,240273957,240274127,240274317,240275020,240276918,
6963130387004118284735707++NM_00138451956602945639chrA2168638799145512801459050457204,57,138,132,90,132,168,280,189,78,75,196,159,75,48,89,33,27,35,94,10,22,42,6,8,19,5,10,8,9,9,79,58,42,36,90,48,24,69,24,163,6 ...294,504,561,699,831,921,1053,1221,1501,1722,1800,1875,2071,2316,2400,2452,2548,2585,2642,2677,2806,2924,2964,3100,3107,3115,3136 ...14551280,14551484,14575196,14575460,14577105,14577808,14578107,14579880,14583056,14583277,14584033,14584392,14586963,14587193,14 ...

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