Schema for xenoRefSeqAli
  Database: monDom4    Primary Table: xenoRefSeqAli    Row Count: 323,356   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 520int(10) unsigned range Number of bases that match that aren't repeats
misMatches 100int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 414int(10) unsigned range Number of bases inserted in query
tNumInsert 7int(10) unsigned range Number of inserts in target
tBaseInsert 8846int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001080602varchar(255) values Query sequence name
qSize 2875int(10) unsigned range Query sequence size
qStart 1int(10) unsigned range Alignment start position in query
qEnd 1035int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 748055161int(10) unsigned range Target sequence size
tStart 685int(10) unsigned range Alignment start position in target
tEnd 10151int(10) unsigned range Alignment end position in target
blockCount 8int(10) unsigned range Number of blocks in alignment
blockSizes 25,34,140,157,64,56,74,70,longblob   Size of each block
qStarts 1,26,474,614,771,835,891,965,longblob   Start of each block in query.
tStarts 748045010,748045048,7480456...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)
      monDom4.all_est.qName (via xenoRefSeqAli.qName)
      monDom4.all_mrna.qName (via xenoRefSeqAli.qName)
      monDom4.refGene.name (via xenoRefSeqAli.qName)
      monDom4.refSeqAli.qName (via xenoRefSeqAli.qName)
      monDom4.xenoMrna.qName (via xenoRefSeqAli.qName)
      monDom4.xenoRefFlat.name (via xenoRefSeqAli.qName)
      monDom4.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
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,
58674916900111023653++NM_00124389612521181037chr174805516117713020170111112,69,210,171,62,60,50,40,93,3,48,118,230,299,509,680,742,803,853,893,986,989,177130,189001,189441,193525,195035,196950,197665,199198,199323,199421,201653,
21765011000000+-NR_1457251311576chr7262624689208536372208536433161,15,54088256,

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