Schema for xenoRefSeqAli
  Database: monDom5    Primary Table: xenoRefSeqAli    Row Count: 256,483   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 689smallint(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 114int(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 2int(10) unsigned range Number of inserts in target
tBaseInsert 13517int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001183209varchar(255) values Query sequence name
qSize 1107int(10) unsigned range Query sequence size
qStart 84int(10) unsigned range Alignment start position in query
qEnd 393int(10) unsigned range Alignment end position in query
tName chr5varchar(255) values Target sequence name
tSize 304825324int(10) unsigned range Target sequence size
tStart 13723552int(10) unsigned range Alignment start position in target
tEnd 13737378int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 207,3,99,longblob   Size of each block
qStarts 84,291,294,longblob   Start of each block in query.
tStarts 13723552,13723803,13737279,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)
      monDom5.all_est.qName (via xenoRefSeqAli.qName)
      monDom5.all_mrna.qName (via xenoRefSeqAli.qName)
      monDom5.refGene.name (via xenoRefSeqAli.qName)
      monDom5.refSeqAli.qName (via xenoRefSeqAli.qName)
      monDom5.xenoMrna.qName (via xenoRefSeqAli.qName)
      monDom5.xenoRefFlat.name (via xenoRefSeqAli.qName)
      monDom5.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
6891951140000213517++NM_001183209110784393chr530482532413723552137373783207,3,99,84,291,294,13723552,13723803,13737279,
58552010000141478846+-NM_001080602287511035chr174805516168510151825,34,140,157,64,56,74,70,1,26,474,614,771,835,891,965,748045010,748045048,748045633,748046310,748047168,748047991,748052566,748054406,
58563312500447498820+-NM_0010903322721161248chr1748055161685102631072,42,30,15,175,160,64,56,74,70,16,111,158,294,649,824,984,1048,1104,1178,748044898,748044994,748045055,748045107,748045595,748046307,748047168,748047991,748052566,748054406,
58567411200330198807+-NM_001113414501601087chr1748055161685102781084,42,54,14,171,157,64,56,74,70,0,100,142,240,495,666,823,887,943,1017,748044883,748044986,748045029,748045129,748045602,748046310,748047168,748047991,748052566,748054406,
58567411200330198807+-NM_001113415504301087chr1748055161685102781084,42,54,14,171,157,64,56,74,70,0,100,142,240,495,666,823,887,943,1017,748044883,748044986,748045029,748045129,748045602,748046310,748047168,748047991,748052566,748054406,
58567411200330198807+-NM_010096490801087chr1748055161685102781084,42,54,14,171,157,64,56,74,70,0,100,142,240,495,666,823,887,943,1017,748044883,748044986,748045029,748045129,748045602,748046310,748047168,748047991,748052566,748054406,
586716167001291123682++NR_0336111006911003chr174805516117713020169512112,69,90,90,171,62,58,3,51,39,93,45,91,203,272,391,481,652,714,772,775,826,865,958,177130,189001,189441,189561,193525,195035,196950,197020,197665,199199,199323,201650,
586730143003461023698++NM_0010351011211901009chr174805516117713020170111112,69,84,90,171,62,60,51,30,93,51,90,202,271,391,481,652,714,775,835,865,958,177130,189001,189441,189561,193525,195035,196950,197665,199208,199323,201650,
586722161001361123688++NM_00119986813651351054chr174805516117713020170112112,69,84,90,171,62,58,3,50,40,93,51,135,247,316,436,526,697,759,817,820,870,910,1003,177130,189001,189441,189561,193525,195035,196950,197020,197665,199198,199323,201650,
4839120053300338491377131++NM_00663046073242441chr174805516171334047171471933510130,231,197,176,57,144,287,324,163,24,324,733,964,1161,1337,1394,1558,1845,2169,2417,713340471,713388241,713742556,713743089,714132567,714132708,714132872,714195388,714545439,714719311,

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