Schema for xenoRefSeqAli
  Database: eriEur1    Primary Table: xenoRefSeqAli    Row Count: 935,974   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 1199int(10) unsigned Number of bases that match that aren't repeats
misMatches 164int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 68int(10) unsigned Number of 'N' bases
qNumInsert 25int(10) unsigned Number of inserts in query
qBaseInsert 1633int(10) unsigned Number of bases inserted in query
tNumInsert 24int(10) unsigned Number of inserts in target
tBaseInsert 2178int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_024529varchar(255) Query sequence name
qSize 5869int(10) unsigned Query sequence size
qStart 1587int(10) unsigned Alignment start position in query
qEnd 4651int(10) unsigned Alignment end position in query
tName scaffold_306991varchar(255) Target sequence name
tSize 9632int(10) unsigned Target sequence size
tStart 2537int(10) unsigned Alignment start position in target
tEnd 6146int(10) unsigned Alignment end position in target
blockCount 30int(10) unsigned Number of blocks in alignment
blockSizes 139,49,62,139,26,4,57,96,39...longblob Size of each block
qStarts 1587,1726,1793,1855,2003,20...longblob Start of each block in query.
tStarts 3486,4307,4412,4475,4622,46...longblob Start of each block in target.

Connected Tables and Joining Fields
        eriEur1.all_mrna.qName (via xenoRefSeqAli.qName)
      eriEur1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      eriEur1.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
5851199164068251633242178+-NM_024529586915874651scaffold_30699196322537614630139,49,62,139,26,4,57,96,39,9,9,14,25,12,37,22,20,9,29,87,45,73,100,189,22,7,10,11,21,69,1587,1726,1793,1855,2003,2030,2090,2149,2366,2410,2422,2435,2451,2476,2504,2665,2687,2709,2719,2794,3323,3403,3531,3833,4301,436 ...3486,4307,4412,4475,4622,4648,4712,4769,4979,5022,5032,5046,5060,5086,5113,5275,5299,5319,5333,5404,5901,5982,6111,6361,6816,686 ...
585525920063447343++NM_00119509315524851446chrM1744715932553849,51,39,19,45,168,21,225,485,582,762,812,831,891,1127,1221,1593,1693,1868,1919,1939,1996,2229,2328,
585706121000000+-NM_201550234440867scaffold_3654737480273735641827,40,3916,
5855511060076457324++NM_00119363417594461748chrM1744715942575950,9,51,36,63,165,40,99,144,446,496,543,722,771,851,1402,1504,1604,1594,1646,1693,1869,1919,1996,2228,2332,2431,
585726124049583123492+-NM_001301147412013002737scaffold_2517315595110445613131,212,93,77,58,66,11,20,32,7,90,18,39,1300,1431,1651,1744,1833,1989,2087,2163,2209,2241,2254,2542,2698,1139,4191,4409,4503,4589,4751,4853,4928,4981,5024,5033,5297,5446,
5859714000000++NM_013229716823662477scaffold_3596836912471248231111,2366,4712,
585148390013523388+-NM_0004162074226448scaffold_2877671303512254800330,140,17,226,291,431,8235,9756,11793,
5857319200440381534+-NM_02052915593321558scaffold_2890652128818850212079109,211,82,234,51,36,42,21,37,332,441,652,762,1011,1069,1458,1500,1521,81,516,996,1299,1883,1944,2335,2379,2401,
58528817400413774771+-NM_001846644612823121scaffold_364715150481320214435654,43,41,123,18,183,1282,1375,1418,2335,2668,2938,613,1225,1409,1498,1645,1663,
58522325000000++NM_001097927151111631411chrM17447232525731248,1163,2325,

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