Schema for xenoRefSeqAli
  Database: oryLat2    Primary Table: xenoRefSeqAli    Row Count: 267,261   Data last updated: 2020-08-19
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 744smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 403int(10) unsigned range Number of bases that match that aren't repeats
misMatches 151int(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 43int(10) unsigned range Number of 'N' bases
qNumInsert 3int(10) unsigned range Number of inserts in query
qBaseInsert 534int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 3605int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NR_157570varchar(255) values Query sequence name
qSize 3140int(10) unsigned range Query sequence size
qStart 19int(10) unsigned range Alignment start position in query
qEnd 1150int(10) unsigned range Alignment end position in query
tName chr15varchar(255) values Target sequence name
tSize 30000224int(10) unsigned range Target sequence size
tStart 20920383int(10) unsigned range Alignment start position in target
tEnd 20924585int(10) unsigned range Alignment end position in target
blockCount 6int(10) unsigned range Number of blocks in alignment
blockSizes 123,148,65,60,79,122,longblob   Size of each block
qStarts 19,331,479,601,949,1028,longblob   Start of each block in query.
tStarts 9075639,9077313,9077535,907...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)
      oryLat2.all_est.qName (via xenoRefSeqAli.qName)
      oryLat2.all_mrna.qName (via xenoRefSeqAli.qName)
      oryLat2.refGene.name (via xenoRefSeqAli.qName)
      oryLat2.refSeqAli.qName (via xenoRefSeqAli.qName)
      oryLat2.xenoMrna.qName (via xenoRefSeqAli.qName)
      oryLat2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      oryLat2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
744403151043353453605+-NR_1575703140191150chr153000022420920383209245856123,148,65,60,79,122,19,331,479,601,949,1028,9075639,9077313,9077535,9077642,9078776,9079719,
586498196020446274718+-NM_13339630454731649chr1399730331791331845658102,117,54,147,42,69,81,102,473,575,692,746,929,992,1064,1547,39788468,39790865,39791089,39791284,39791796,39792335,39792550,39793798,
75955419100217343126++NM_00119245820483921310chr7294921212284700122850872560,222,297,129,37,392,509,731,1028,1273,22847001,22847211,22848176,22850512,22850835,
58652318800439994712+-NM_00126576124573581468chr1399730331791601845831081,117,54,99,75,79,2,81,45,78,358,481,598,700,799,895,974,976,1057,1390,39788450,39790865,39791089,39791332,39791760,39792326,39792429,39792550,39792794,39793795,
63561217802332521021235+-NM_00135275228852541319chr16300143846642872666492011109,65,81,3,33,66,161,4,78,86,127,254,363,641,722,725,767,863,1024,1028,1106,1192,23349464,23357818,23358849,23358950,23366498,23368674,23369785,23369952,23370642,23370816,23371385,
95140756100821181757277+-NM_00114278268748314917chr729492121236993522375859718123,118,149,73,2,78,54,172,140,252,57,6,174,79,173,138,138,42,831,954,1072,1383,1456,1458,1596,1707,1879,2235,2706,2763,2769,3069,3148,3570,3708,4875,5733524,5737742,5757611,5760640,5760874,5762225,5765746,5774153,5775619,5775984,5779800,5780213,5781040,5783224,5785254,5787825, ...
58651917500542584723+-NM_011571362012392358chr139973033179166184583988,117,54,99,75,78,81,30,72,1239,1362,1479,1581,1680,1776,1857,1938,2286,39788450,39790865,39791089,39791332,39791760,39792326,39792550,39792794,39793795,
58652117300542584723+-NM_031578358112112330chr139973033179166184583988,117,54,99,75,78,81,30,72,1211,1334,1451,1553,1652,1748,1829,1910,2258,39788450,39790865,39791089,39791332,39791760,39792326,39792550,39792794,39793795,
58674115705627274765+-NM_00107863729132101236chr1399730332070082127278159,126,153,105,99,92,112,108,210,369,495,660,825,924,1016,1128,39760306,39762861,39763058,39764429,39765271,39765438,39765682,39765917,
58667617708611274690+-NM_00103964040825161467chr139973033207029212658889,126,154,149,115,92,123,91,516,605,731,897,1046,1161,1253,1376,39760375,39762860,39763057,39764429,39765255,39765438,39765682,39765913,

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