Schema for xenoRefSeqAli
  Database: danRer5    Primary Table: xenoRefSeqAli    Row Count: 266,487   Data last updated: 2020-08-21
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 232int(10) unsigned range Number of bases that match that aren't repeats
misMatches 89int(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 75int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 5894int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001108390varchar(255) values Query sequence name
qSize 2110int(10) unsigned range Query sequence size
qStart 616int(10) unsigned range Alignment start position in query
qEnd 1012int(10) unsigned range Alignment end position in query
tName Zv7_NA1varchar(255) values Target sequence name
tSize 126708int(10) unsigned range Target sequence size
tStart 110395int(10) unsigned range Alignment start position in target
tEnd 116610int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 57,70,125,69,longblob   Size of each block
qStarts 616,748,818,943,longblob   Start of each block in query.
tStarts 10098,14298,15523,16244,longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer5.all_est.qName (via xenoRefSeqAli.qName)
      danRer5.all_mrna.qName (via xenoRefSeqAli.qName)
      danRer5.refGene.name (via xenoRefSeqAli.qName)
      danRer5.refSeqAli.qName (via xenoRefSeqAli.qName)
      danRer5.xenoMrna.qName (via xenoRefSeqAli.qName)
      danRer5.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585232890017535894+-NM_00110839021106161012Zv7_NA1126708110395116610457,70,125,69,616,748,818,943,10098,14298,15523,16244,
5852499900210547578+-NM_0010939252269407860Zv7_NA1126708110395118321527,57,70,125,69,407,473,596,666,791,8387,10098,14298,15523,16244,
585345870021567500+-NM_0011243871727220667Zv7_NA1126708110395118327733,27,105,6,67,125,69,220,262,295,400,406,473,598,8381,10065,10095,12250,14301,15523,16244,
67643420400211557343++NM_001368713128456809chr77026200911990765119987466105,80,148,71,61,173,56,161,340,488,575,636,11990765,11993552,11994440,11997137,11997307,11998573,
585385125000047476+-NM_0010130591741188698Zv7_NA1126708110395118381597,131,88,125,69,188,285,416,504,629,8327,10066,14280,15523,16244,
585408102000047476+-NM_0011605561220155665Zv7_NA1126708110395118381597,130,84,130,69,155,252,382,466,596,8327,10066,14279,15518,16244,
585387122001157477+-NM_001245813906134644Zv7_NA1126708110395118381693,2,132,88,125,69,134,227,229,361,450,575,8327,8450,10064,14279,15523,16244,
585378137001147477+-NM_0010323342490116632Zv7_NA11267081103951183875105,128,88,125,69,116,222,350,438,563,8321,10069,14280,15523,16244,
585374142000057476+-NM_001092816183799615Zv7_NA11267081103951183876104,4,126,88,125,69,99,203,207,333,421,546,8321,8461,10071,14280,15523,16244,
585382134000057476+-NM_00109711583371587Zv7_NA1126708110395118387699,7,127,89,125,69,71,170,177,304,393,518,8321,9495,10069,14279,15523,16244,

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