Schema for all_mrna
  Database: choHof1    Primary Table: all_mrna    Row Count: 7   Data last updated: 2016-05-27
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 1077int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1int(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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName HQ141117varchar(255) values Query sequence name
qSize 6765int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1078int(10) unsigned range Alignment end position in query
tName scaffold_33448varchar(255) values Target sequence name
tSize 14714int(10) unsigned range Target sequence size
tStart 9254int(10) unsigned range Alignment start position in target
tEnd 10332int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 1078,longblob   Size of each block
qStarts 0,longblob   Start of each block in query.
tStarts 9254,longblob   Start of each block in target.

Connected Tables and Joining Fields
        choHof1.mrnaOrientInfo.name (via all_mrna.qName)
      choHof1.xenoMrna.qName (via all_mrna.qName)
      choHof1.xenoRefGene.name (via all_mrna.qName)
      choHof1.xenoRefSeqAli.qName (via all_mrna.qName)
      hgFixed.gbCdnaInfo.acc (via all_mrna.qName)
      hgFixed.gbMiscDiff.acc (via all_mrna.qName)
      hgFixed.gbSeq.acc (via all_mrna.qName)
      hgFixed.gbWarn.acc (via all_mrna.qName)
      hgFixed.imageClone.acc (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58510771000000+HQ141117676501078scaffold_334481471492541033211078,0,9254,
5855892000000+HQ141117676561746765scaffold_432661483705911591,6174,0,
5854101000000-HM803989707296707scaffold_6462512958888192921411,0,8881,
58527531230001149+DQ32361842221422scaffold_69995789581513652134,267,21,155,815,1098,
58522048702234502+DQ32364836754367scaffold_74982960945689381637,77,16,57,93,31,54,92,170,186,243,336,4568,4605,4682,4699,5622,9350,
5852162002224595+DQ32364927454274scaffold_74982960945689381537,77,16,57,31,54,92,170,186,243,4568,4605,4682,4699,9350,
5851370000000-DQ32360618537174scaffold_1176569295370438411137,11,3704,

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