Schema for all_est
  Database: cb3    Primary Table: all_est    Row Count: 2,427   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 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 203int(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 3int(10) unsigned range Number of 'N' bases
qNumInsert 2int(10) unsigned range Number of inserts in query
qBaseInsert 2int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 49int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName R04897varchar(255) values Query sequence name
qSize 216int(10) unsigned range Query sequence size
qStart 7int(10) unsigned range Alignment start position in query
qEnd 216int(10) unsigned range Alignment end position in query
tName chrIvarchar(255) values Target sequence name
tSize 11274843int(10) unsigned range Target sequence size
tStart 393072int(10) unsigned range Alignment start position in target
tEnd 393328int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 96,30,4,77,longblob   Size of each block
qStarts 7,104,134,139,longblob   Start of each block in query.
tStarts 393072,393170,393247,393251,longblob   Start of each block in target.

Connected Tables and Joining Fields
        cb3.all_mrna.qName (via all_est.qName)
      cb3.est.qName (via all_est.qName)
      cb3.estOrientInfo.name (via all_est.qName)
      cb3.intronEst.qName (via all_est.qName)
      cb3.xenoMrna.qName (via all_est.qName)
      cb3.xenoRefGene.name (via all_est.qName)
      cb3.xenoRefSeqAli.qName (via all_est.qName)
      hgFixed.gbCdnaInfo.acc (via all_est.qName)
      hgFixed.gbMiscDiff.acc (via all_est.qName)
      hgFixed.gbSeq.acc (via all_est.qName)
      hgFixed.gbWarn.acc (via all_est.qName)
      hgFixed.imageClone.acc (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
7320310322249+R048972167216chrI11274843393072393328496,30,4,77,7,104,134,139,393072,393170,393247,393251,
5883023027822580+R033813150315chrI112748434873234902101040,36,141,43,7,12,9,7,8,4,0,41,77,218,262,271,284,294,302,311,487323,487363,489648,490120,490163,490170,490182,490191,490198,490206,
5883001030023-R033823040304chrI112748434933424936493140,97,67,0,140,237,493342,493484,493582,
59333110222148+R052593360336chrI11274843108993510903174228,98,4,4,0,228,327,332,1089935,1090211,1090309,1090313,
59329900134350+R039743040304chrI112748431089940109029065,12,204,45,8,26,0,5,19,223,269,278,1089940,1089946,1089959,1090211,1090256,1090264,
59334800079456-R038573633360chrI1127484310903271090731107,6,4,7,4,137,70,53,42,18,3,13,20,25,33,38,176,246,299,342,1090327,1090335,1090341,1090345,1090352,1090356,1090495,1090566,1090671,1090713,
59330800133354-R050473120312chrI1127484310903341090697712,5,5,137,71,53,26,0,13,19,25,162,233,286,1090334,1090346,1090351,1090356,1090494,1090566,1090671,
59329700211146-R036803044304chrI11274843109037910907243185,61,53,0,186,247,1090379,1090564,1090671,
5932643050000+R033222720272chrI11274843116997011702421272,0,1169970,
593264400001895-R033232680268chrI11274843117543311765962156,112,0,156,1175433,1176484,

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