Schema for xenoRefSeqAli
  Database: anoGam3    Primary Table: xenoRefSeqAli    Row Count: 67,288   Data last updated: 2018-07-30
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 372int(10) unsigned range Number of bases that match that aren't repeats
misMatches 204int(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 6int(10) unsigned range Number of 'N' bases
qNumInsert 2int(10) unsigned range Number of inserts in query
qBaseInsert 63int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 118int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001311475varchar(255) values Query sequence name
qSize 1533int(10) unsigned range Query sequence size
qStart 294int(10) unsigned range Alignment start position in query
qEnd 939int(10) unsigned range Alignment end position in query
tName chr2Lvarchar(255) values Target sequence name
tSize 49364325int(10) unsigned range Target sequence size
tStart 157510int(10) unsigned range Alignment start position in target
tEnd 158210int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 294,174,114,longblob   Size of each block
qStarts 294,609,825,longblob   Start of each block in query.
tStarts 49206115,49206427,49206701,longblob   Start of each block in target.

Connected Tables and Joining Fields
        anoGam3.all_est.qName (via xenoRefSeqAli.qName)
      anoGam3.all_mrna.qName (via xenoRefSeqAli.qName)
      anoGam3.xenoMrna.qName (via xenoRefSeqAli.qName)
      anoGam3.xenoRefFlat.name (via xenoRefSeqAli.qName)
      anoGam3.xenoRefGene.name (via xenoRefSeqAli.qName)
      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)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
586372204062632118+-NM_0013114751533294939chr2L493643251575101582103294,174,114,294,609,825,49206115,49206427,49206701,
5864602690000155+-NM_00103136017033011030chr2L493643251575131582972620,109,301,921,49206028,49206703,
586380196002902145+-NM_02678822564671133chr2L493643251575161582373321,150,105,467,875,1028,49206088,49206496,49206704,
58632517600236291+-NM_19981317904901027chr2L493643251575221581143195,216,90,490,709,937,49206211,49206430,49206713,
586376194002902145+-NM_00110721122114421102chr2L493643251575221582373321,150,99,442,850,1003,49206088,49206496,49206704,
58642121800130285+-NM_00100218123504611130chr2L493643251575221582463387,153,99,461,878,1031,49206079,49206496,49206704,
586378189002902145+-NM_00119390710443721029chr2L493643251575251582373321,150,96,372,780,933,49206088,49206496,49206704,
586379194001872142+-NM_00110939820613991059chr2L493643251575251582403324,153,96,399,810,963,49206085,49206496,49206704,
586385188001872142+-NM_00863820704021062chr2L493643251575251582403324,153,96,402,813,966,49206085,49206496,49206704,
58644120400121276+-NM_0010757551658333999chr2L493643251575251582463330,219,96,333,684,903,49206079,49206430,49206704,

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