Schema for all_mrna
  Database: xenLae2    Primary Table: all_mrna    Row Count: 26,729   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 158int(10) unsigned range Number of bases that match that aren't repeats
misMatches 5int(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 1int(10) unsigned range Number of inserts in target
tBaseInsert 220779int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName L15586varchar(255) values Query sequence name
qSize 199int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 163int(10) unsigned range Alignment end position in query
tName chr1Lvarchar(255) values Target sequence name
tSize 219802468int(10) unsigned range Target sequence size
tStart 95705int(10) unsigned range Alignment start position in target
tEnd 316647int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 86,77,longblob   Size of each block
qStarts 36,122,longblob   Start of each block in query.
tStarts 95705,316570,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      xenLae2.all_est.qName (via all_mrna.qName)
      xenLae2.mrnaOrientInfo.name (via all_mrna.qName)
      xenLae2.refGene.name (via all_mrna.qName)
      xenLae2.refSeqAli.qName (via all_mrna.qName)
      xenLae2.xenoRefGene.name (via all_mrna.qName)
      xenLae2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73158500001220779-L155861990163chr1L21980246895705316647286,77,36,122,95705,316570,
73136300001220779-L155871760139chr1L21980246895706316624285,54,37,122,95706,316570,
73319900002235752-L155743770328chr1L219802468957153317953104,192,32,49,153,345,95715,230875,331763,
585330500142142-L155803910339chr1L21980246895718961953119,161,55,52,175,336,95718,95841,96140,
585322100014316229-L155823880336chr1L219802468957181122794119,83,78,52,52,175,258,336,95718,95841,112039,112227,
73321400215490874-L155803910340chr1L219802468999271911265120,4,46,99,56,51,171,175,234,335,99927,100134,190789,190845,191070,
5861780000000-L155852100178chr1L2198024681906461908241178,32,190646,
73335700002125835-L155753810342chr1L219802468205622331799330,276,36,39,69,345,205622,230791,331763,
5862004000000-L155832560204chr1L2198024682056352058391204,52,205635,
7320240000298622-L155832560206chr1L2198024682269143257423175,8,23,50,225,233,226914,229376,325719,

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