Schema for xenoRefSeqAli
  Database: petMar2    Primary Table: xenoRefSeqAli    Row Count: 133,743   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 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 195int(10) unsigned range Number of bases that match that aren't repeats
misMatches 129int(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_001255352varchar(255) values Query sequence name
qSize 992int(10) unsigned range Query sequence size
qStart 467int(10) unsigned range Alignment start position in query
qEnd 791int(10) unsigned range Alignment end position in query
tName GL476328varchar(255) values Target sequence name
tSize 1509122int(10) unsigned range Target sequence size
tStart 235337int(10) unsigned range Alignment start position in target
tEnd 235661int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 324,longblob   Size of each block
qStarts 467,longblob   Start of each block in query.
tStarts 1273461,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)
      petMar2.all_est.qName (via xenoRefSeqAli.qName)
      petMar2.all_mrna.qName (via xenoRefSeqAli.qName)
      petMar2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      petMar2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
586195129000000+-NM_001255352992467791GL47632815091222353372356611324,467,1273461,
58610764000000+-NM_001179334786429600GL47632815091222354902356611171,429,1273461,
58610962000000+-NM_001181803786429600GL47632815091222354902356611171,429,1273461,
5877332450058461048553+-NM_00138236424442062030GL47648439405829929034882111150,102,3,105,22,100,8,87,111,125,165,206,725,827,830,1138,1256,1356,1364,1595,1740,1865,45237,65406,66315,68098,72198,75388,77335,79663,82091,91262,94603,
5877732560068461158488+-NM_00138236124962072082GL4764843940582992903588071251,150,102,3,105,22,100,8,87,111,125,165,207,270,789,891,894,1190,1308,1408,1416,1647,1792,1917,35251,45237,65406,66315,68098,72198,75388,77335,79663,82091,91262,94603,
7375820302055011165428+-NM_00117282120163181800GL47632815091223854504518591272,81,127,76,100,78,24,111,97,51,98,66,318,399,480,607,683,783,885,924,1035,1542,1593,1734,1057263,1074320,1094180,1094974,1095850,1097147,1097243,1099777,1100595,1118923,1122037,1123606,
7376119702055071165431+-NM_00120544120873741859GL47632815091223854504518591272,81,127,76,100,78,24,111,96,44,103,66,374,455,536,663,739,839,941,980,1091,1601,1645,1793,1057263,1074320,1094180,1094974,1095850,1097147,1097243,1099777,1100595,1118923,1122030,1123606,
7373722202055031165430+-NM_00843430524171899GL47632815091223854504518591272,81,127,76,100,78,24,111,97,44,103,66,417,498,579,706,782,882,984,1023,1134,1641,1685,1833,1057263,1074320,1094180,1094974,1095850,1097147,1097243,1099777,1100595,1118923,1122030,1123606,
7374321502055041165431+-NM_03207330704041886GL47632815091223854504518591272,81,127,76,100,78,24,111,96,51,96,66,404,485,566,693,769,869,971,1010,1121,1628,1679,1820,1057263,1074320,1094180,1094974,1095850,1097147,1097243,1099777,1100595,1118923,1122037,1123606,
7360820602056271065281+-NM_00112324224752221683GL47632815091223857414518561169,45,118,76,100,78,21,111,96,98,22,222,302,390,508,584,684,789,825,936,1563,1661,1057266,1074322,1094189,1094974,1095850,1097147,1097246,1099777,1100595,1122034,1123359,

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