Schema for xenoMrna
  Database: canFam3    Primary Table: xenoMrna    Row Count: 4,833,489   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 586smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 2121int(10) unsigned Number of bases that match that aren't repeats
misMatches 358int(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 45int(10) unsigned Number of inserts in query
qBaseInsert 3047int(10) unsigned Number of bases inserted in query
tNumInsert 39int(10) unsigned Number of inserts in target
tBaseInsert 2814int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName LF205360varchar(255) Query sequence name
qSize 6042int(10) unsigned Query sequence size
qStart 13int(10) unsigned Alignment start position in query
qEnd 5539int(10) unsigned Alignment end position in query
tName chr7varchar(255) Target sequence name
tSize 80974532int(10) unsigned Target sequence size
tStart 232193int(10) unsigned Alignment start position in target
tEnd 237486int(10) unsigned Alignment end position in target
blockCount 49int(10) unsigned Number of blocks in alignment
blockSizes 51,43,17,46,63,114,26,235,9...longblob Size of each block
qStarts 13,94,165,276,390,485,601,6...longblob Start of each block in query.
tStarts 80737046,80737126,80737198,...longblob Start of each block in target.

Connected Tables and Joining Fields
        canFam3.all_est.qName (via xenoMrna.qName)
      canFam3.all_mrna.qName (via xenoMrna.qName)
      canFam3.refGene.name (via xenoMrna.qName)
      canFam3.refSeqAli.qName (via xenoMrna.qName)
      canFam3.xenoRefFlat.name (via xenoMrna.qName)
      canFam3.xenoRefGene.name (via xenoMrna.qName)
      canFam3.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
586212135800453047392814+-LF2053606042135539chr7809745322321932374864951,43,17,46,63,114,26,235,9,18,8,17,39,9,135,13,12,8,13,4,4,16,9,5,8,26,8,210,21,9,16,10,24,39,63,176,48,51,60,66,191,117,10,16, ...13,94,165,276,390,485,601,649,925,934,952,1023,1041,1085,1164,1403,1417,1461,1473,1571,1575,1580,1602,1614,1636,1651,1678,1721,1 ...80737046,80737126,80737198,80737302,80737389,80737494,80737608,80737652,80737896,80737944,80737966,80738017,80738034,80738079,80 ...
7637133250045431025064+-LQ42776525715932174chr363081099523361949233880511181,3,131,142,136,164,45,69,128,102,37,593,674,677,808,1031,1167,1613,1679,1907,2035,2137,7422944,7423035,7426510,7427753,7430312,7430545,7441347,7444610,7446953,7448816,7449009,
7637123260046831025064+-LQ42776625125142235chr363081099523361949233880511181,3,131,142,136,164,45,69,128,102,37,514,595,598,729,1092,1228,1674,1740,1968,2096,2198,7422944,7423035,7426510,7427753,7430312,7430545,7441347,7444610,7446953,7448816,7449009,
7843041100018725707++HL633342648147648chr344212443126126896261330173117,141,156,147,351,492,26126896,26131186,26132861,
786961000000++HL58988598198chr34421244312646064426460741197,1,26460644,
7371064000000++HL5898651100110chr363081099519958903199590131110,0,19958903,
7562450847002152224461+-HL633124331203312chr3730902991224575432248530123214,186,84,276,113,169,156,110,195,85,174,90,183,90,460,145,157,1,125,107,63,42,72,0,214,400,484,760,873,1042,1198,1308,1503,1588,1762,1852,2035,2125,2585,2739,2896,2897,3022,3129,3198,3240,8417690,8419011,8421264,8422601,8423804,8424585,8425318,8426347,8428784,8430223,8431175,8432596,8432896,8434240,8435292,8436882, ...
586782100197190+-JU48803631232228chr1122678785248559248748278,21,32,207,122430037,122430205,
58625247001525+-EZ48166238864368chr11226787852486682489723189,59,51,64,253,317,122429813,122430003,122430066,
58613820002711+-EZ462419420239404chr1122678785249054249213386,36,36,239,328,368,122429572,122429658,122429695,

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