Schema for xenoMrna
  Database: cavPor3    Primary Table: xenoMrna    Row Count: 6,302,418   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 588smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 416int(10) unsigned Number of bases that match that aren't repeats
misMatches 160int(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 2int(10) unsigned Number of inserts in query
qBaseInsert 274int(10) unsigned Number of bases inserted in query
tNumInsert 5int(10) unsigned Number of inserts in target
tBaseInsert 8709int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName JW186351varchar(255) Query sequence name
qSize 1243int(10) unsigned Query sequence size
qStart 3int(10) unsigned Alignment start position in query
qEnd 853int(10) unsigned Alignment end position in query
tName scaffold_8varchar(255) Target sequence name
tSize 60673567int(10) unsigned Target sequence size
tStart 459403int(10) unsigned Alignment start position in target
tEnd 468688int(10) unsigned Alignment end position in target
blockCount 6int(10) unsigned Number of blocks in alignment
blockSizes 51,78,82,144,92,129,longblob Size of each block
qStarts 3,54,207,289,433,724,longblob Start of each block in query.
tStarts 60204879,60205939,60206876,...longblob Start of each block in target.

Connected Tables and Joining Fields
        cavPor3.all_est.qName (via xenoMrna.qName)
      cavPor3.all_mrna.qName (via xenoMrna.qName)
      cavPor3.refGene.name (via xenoMrna.qName)
      cavPor3.refSeqAli.qName (via xenoMrna.qName)
      cavPor3.xenoRefGene.name (via xenoMrna.qName)
      cavPor3.xenoRefSeqAli.qName (via xenoMrna.qName)
      hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58841616000227458709+-JW18635112433853scaffold_860673567459403468688651,78,82,144,92,129,3,54,207,289,433,724,60204879,60205939,60206876,60207254,60208050,60214035,
86452600000416019++JO4164886180512scaffold_14432478741453661214553143579,71,103,143,116,0,79,150,253,396,14536612,14537338,14544700,14550334,14553027,
58514136000000+-X7230810850177chrM168011743511177,0,16450,
801666520000922306+-JO6185407180718scaffold_37555112628368503283915271040,61,85,81,111,51,94,50,116,29,0,40,101,186,267,378,429,523,573,689,47159599,47159640,47160650,47162085,47163235,47164553,47167947,47168165,47169098,47182594,
587229520000118021++HQ37848832410291scaffold_3722756556361382379684235,246,10,45,361382,379438,
73212450000134696++AY86717332110267scaffold_3722756556361382396335235,222,10,45,361382,396113,
732293800001280773++AY24765632110277scaffold_3722756556361382642422235,232,10,45,361382,642190,
5851362100112114++FQ21179126931200chrM16801194365281,76,31,124,194,289,
585231270031463142++FQ212131544116520chrM16801194594481,76,55,46,116,209,390,474,194,289,465,548,
7017993170016712807+-AK4191221170211143scaffold_372275655615230564152444878114,126,107,91,160,194,182,142,21,141,267,374,465,625,819,1001,7512069,7513203,7517586,7517960,7520093,7521885,7523159,7525850,

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