Schema for xenoRefSeqAli
  Database: strPur1    Primary Table: xenoRefSeqAli    Row Count: 662,468   Data last updated: 2020-09-01
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 368int(10) unsigned Number of bases that match that aren't repeats
misMatches 175int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 3int(10) unsigned Number of inserts in query
qBaseInsert 282int(10) unsigned Number of bases inserted in query
tNumInsert 5int(10) unsigned Number of inserts in target
tBaseInsert 11737int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_001292994varchar(255) Query sequence name
qSize 1636int(10) unsigned Query sequence size
qStart 121int(10) unsigned Alignment start position in query
qEnd 946int(10) unsigned Alignment end position in query
tName Scaffold1varchar(255) Target sequence name
tSize 962155int(10) unsigned Target sequence size
tStart 168int(10) unsigned Alignment start position in target
tEnd 12448int(10) unsigned Alignment end position in target
blockCount 6int(10) unsigned Number of blocks in alignment
blockSizes 63,102,123,57,105,93,longblob Size of each block
qStarts 121,193,295,418,637,853,longblob Start of each block in query.
tStarts 949707,957092,957908,958609...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)
      strPur1.all_mrna.qName (via xenoRefSeqAli.qName)
      strPur1.refGene.name (via xenoRefSeqAli.qName)
      strPur1.refSeqAli.qName (via xenoRefSeqAli.qName)
      strPur1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      strPur1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585368175003282511737+-NM_0012929941636121946Scaffold196215516812448663,102,123,57,105,93,121,193,295,418,637,853,949707,957092,957908,958609,960042,961894,
5852371020019211994+-NM_00204914646721020Scaffold113110569967826201593147,113,79,672,828,941,36837,38274,49091,
585294141002417311872+-NM_0010901142337139991Scaffold196215516812475490,123,129,93,139,340,463,898,949680,957908,958609,961894,
585296139002417311872+-NM_0010954661772145997Scaffold196215516812475490,123,129,93,145,346,469,904,949680,957908,958609,961894,
58526130003913323+-NM_032521457922412623Scaffold1146641074366504119,111,28,33,2241,2367,2560,2590,424,576,970,1005,
5856102720041050730757+-NM_00131792633498302762Scaffold130519102486544118183872,138,66,134,169,222,3,78,830,1505,1652,2087,2221,2459,2681,2684,72841,98038,98870,101394,102736,103652,104192,104402,
585524214001117611572+-NM_2036682015142997Scaffold196215516812478799,105,123,123,96,105,87,142,241,346,469,592,688,910,949677,957089,957908,958609,959538,960042,961900,
5854381530016059879+-NM_0010797571641129780Scaffold1962155200812478697,107,123,128,31,105,129,226,333,456,584,675,949677,957087,957908,958609,959543,960042,
585469182000059819+-NM_0010932221982116767Scaffold1962155200812478699,105,123,123,96,105,116,215,320,443,566,662,949677,957089,957908,958609,959538,960042,
585349137000049411+-NM_0011087111934114600Scaffold1962155258112478599,105,123,129,30,114,213,318,441,570,949677,957089,957908,958609,959544,

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