Schema for xenoRefSeqAli
  Database: rhiRox1    Primary Table: xenoRefSeqAli    Row Count: 391,140   Data last updated: 2020-08-22
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 1403int(10) unsigned range Number of bases that match that aren't repeats
misMatches 55int(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 3int(10) unsigned range Number of inserts in query
qBaseInsert 31int(10) unsigned range Number of bases inserted in query
tNumInsert 9int(10) unsigned range Number of inserts in target
tBaseInsert 14365int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001133161varchar(255) values Query sequence name
qSize 2365int(10) unsigned range Query sequence size
qStart 119int(10) unsigned range Alignment start position in query
qEnd 1608int(10) unsigned range Alignment end position in query
tName JABR01000336v1varchar(255) values Target sequence name
tSize 27395int(10) unsigned range Target sequence size
tStart 2540int(10) unsigned range Alignment start position in target
tEnd 18363int(10) unsigned range Alignment end position in target
blockCount 12int(10) unsigned range Number of blocks in alignment
blockSizes 88,162,144,165,150,98,168,1...longblob   Size of each block
qStarts 119,207,369,513,678,855,953...longblob   Start of each block in query.
tStarts 2540,3363,4425,4886,6880,96...longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      rhiRox1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      rhiRox1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58514035500331914365++NM_00113316123651191608JABR01000336v1273952540183631288,162,144,165,150,98,168,154,39,172,45,73,119,207,369,513,678,855,953,1121,1278,1317,1489,1535,2540,3363,4425,4886,6880,9656,11552,12804,12958,14305,18245,18290,
58512783600331814509++NM_00129433226591951540JABR01000336v1273952540183631188,157,170,150,98,168,154,39,172,45,73,195,283,440,610,787,885,1053,1210,1249,1421,1467,2540,3363,4881,6880,9656,11552,12804,12958,14305,18245,18290,
585959240011714840++NM_0013194771707691053JABR01000336v127395254018363988,162,144,165,96,38,172,45,73,69,157,319,463,628,724,762,934,980,2540,3363,4425,4886,6880,12959,14305,18245,18290,
5861029330000912092+-NM_001135924522040355097KN300047v12177132019592151131096,96,96,96,96,96,96,96,104,190,4035,4131,4227,4323,4419,4515,4611,4707,4803,4907,2600,2779,3888,4571,6277,9415,9604,10461,13216,15564,
585138274005321114367++NR_00326523191261614JABR01000336v1273952540183631652,35,69,95,145,162,151,98,168,158,35,126,44,45,31,42,126,178,213,283,378,523,685,860,958,1126,1287,1322,1448,1492,1538,1572,2540,2593,3363,3432,4427,4889,6880,9656,11552,12804,12962,14305,14433,18245,18290,18321,
585145786006491214282++NR_0032642590891681JABR01000336v1273952540183651752,35,69,95,191,39,162,151,98,168,158,35,126,44,45,31,44,89,141,176,246,341,532,588,750,925,1023,1191,1352,1387,1513,1557,1603,1637,2540,2593,3363,3432,4427,4620,4889,6880,9656,11552,12804,12962,14305,14433,18245,18290,18321,
58567849001153782++NR_0032661560102830JABR01000336v12739525417050751,35,69,95,142,165,170,102,153,188,258,353,495,660,2541,2593,3363,3432,4427,4886,6880,
5851153293004421014376++NM_00127739823811021590JABR01000336v1273952541183631286,163,144,165,150,100,167,156,39,171,36,69,102,188,351,495,660,837,937,1104,1263,1302,1479,1521,2541,3362,4425,4886,6880,9656,11554,12805,12961,14308,18253,18294,
5851275181003321114366++NM_0232812859951583JABR01000336v1273952541183631383,4,162,144,165,150,101,166,157,32,176,44,72,95,178,182,344,488,653,829,930,1096,1256,1288,1464,1511,2541,2748,3363,4425,4886,6880,9655,11554,12804,12961,14301,18245,18291,
5851235207004311014365++NM_1741782217921565JABR01000336v1273952556183631469,3,158,148,165,97,53,98,168,157,36,170,47,73,92,161,164,322,470,635,733,812,910,1078,1238,1274,1444,1492,2556,3050,3363,4421,4886,6880,6977,9656,11552,12804,12961,14305,18243,18290,

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