Schema for all_mrna
  Database: danRer4    Primary Table: all_mrna    Row Count: 40,413   Data last updated: 2020-08-21
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 760int(10) unsigned range Number of bases that match that aren't repeats
misMatches 27int(10) unsigned range Number of bases that don't match
repMatches 54int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 3int(10) unsigned range Number of inserts in query
qBaseInsert 19int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 92218int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName BC095673varchar(255) values Query sequence name
qSize 1104int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 860int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 70589895int(10) unsigned range Target sequence size
tStart 67209int(10) unsigned range Alignment start position in target
tEnd 160268int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 200,9,4,263,190,76,99,longblob   Size of each block
qStarts 244,444,470,475,738,928,1005,longblob   Start of each block in query.
tStarts 67209,67410,67445,67449,140...longblob   Start of each block in target.

Connected Tables and Joining Fields
        danRer4.all_est.qName (via all_mrna.qName)
      danRer4.mgcFullMrna.qName (via all_mrna.qName)
      danRer4.mgcGenes.name (via all_mrna.qName)
      danRer4.mrnaOrientInfo.name (via all_mrna.qName)
      danRer4.refGene.name (via all_mrna.qName)
      danRer4.refSeqAli.qName (via all_mrna.qName)
      danRer4.xenoMrna.qName (via all_mrna.qName)
      danRer4.xenoRefGene.name (via all_mrna.qName)
      danRer4.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
7376027540319592218-BC09567311040860chr170589895672091602687200,9,4,263,190,76,99,244,444,470,475,738,928,1005,67209,67410,67445,67449,140671,160091,160169,
914164500112112+AF246188360167348chr24460815294316053243160713246,123,167,225,43160532,43160590,
91421710012021282-EF222441574327565chr24460815294316408743165587356,127,35,9,85,212,43164087,43164148,43165552,
5861517429031353610-BC142883158141567chr1705898951626751678359234,239,145,56,169,116,142,229,220,14,251,498,643,701,870,986,1128,1357,162675,162909,163148,163294,163350,163520,165380,166057,167615,
7368840000422918-EF46307912375371229chr1705898952479192715295129,95,157,54,257,8,137,232,389,443,247919,256467,260612,261111,271272,
7363440000322972-EU28455911835371175chr1705898952479192715294129,95,157,257,8,137,232,389,247919,256467,260612,271272,
7395750000527848-EF46308016306601622chr1705898952479192767296129,53,157,255,201,167,8,137,190,347,602,803,247919,256467,260612,271272,275892,276562,
73105260000627752-EF46308117266601718chr1705898952479192767297129,95,157,54,255,201,167,8,137,232,389,443,698,899,247919,256467,260612,261111,271272,275892,276562,
7393400000627794-BC17136214004661400chr170589895248001276729747,53,157,54,255,201,167,0,47,100,257,311,566,767,248001,256467,260612,261111,271272,275892,276562,
5893422542471122211604-AY094620383853731chr17058989557606859139623191,422,92,102,131,146,124,155,169,151,134,179,193,135,309,269,118,135,114,201,60,114,80,107,300,722,814,916,1047,1193,1317,1472,1641,1792,1926,2105,2298,2433,2742,3011,3129,3264,3378,3579,3639,3753,576068,576262,581925,582111,582354,582591,582812,583023,583253,583513,583741,583956,584223,584526,586099,586489,588542,588746,58 ...

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