Schema for all_est
  Database: oryLat2    Primary Table: all_est    Row Count: 703,843   Data last updated: 2016-04-29
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 678smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 769int(10) unsigned Number of bases that match that aren't repeats
misMatches 0int(10) unsigned Number of bases that don't match
repMatches 61int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 0int(10) unsigned Number of inserts in query
qBaseInsert 0int(10) unsigned Number of bases inserted in query
tNumInsert 2int(10) unsigned Number of inserts in target
tBaseInsert 158int(10) unsigned Number of bases inserted in target
strand -char(2) + or - for strand. First character query, second target (optional)
qName AB163431varchar(255) Query sequence name
qSize 834int(10) unsigned Query sequence size
qStart 4int(10) unsigned Alignment start position in query
qEnd 834int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 39973033int(10) unsigned Target sequence size
tStart 12288055int(10) unsigned Alignment start position in target
tEnd 12289043int(10) unsigned Alignment end position in target
blockCount 3int(10) unsigned Number of blocks in alignment
blockSizes 377,273,180,longblob Size of each block
qStarts 0,377,650,longblob Start of each block in query.
tStarts 12288055,12288507,12288863,longblob Start of each block in target.

Connected Tables and Joining Fields
        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)
      oryLat2.all_mrna.qName (via all_est.qName)
      oryLat2.estOrientInfo.name (via all_est.qName)
      oryLat2.intronEst.qName (via all_est.qName)
      oryLat2.refGene.name (via all_est.qName)
      oryLat2.refSeqAli.qName (via all_est.qName)
      oryLat2.xenoMrna.qName (via all_est.qName)
      oryLat2.xenoRefGene.name (via all_est.qName)
      oryLat2.xenoRefSeqAli.qName (via all_est.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
6787690610002158-AB1634318344834chr13997303312288055122890433377,273,180,0,377,650,12288055,12288507,12288863,
825423153800018-AB03320650917493chr13997303331584665315851492147,329,16,163,31584665,31584820,
59944710001141033-AB0955014580458chr1230041894194386819453585227,72,123,5,30,0,227,300,423,428,1943868,1944980,1945127,1945277,1945328,
6721579254154481059-AB095496166491663chr1333409148114545991145730811193,35,160,204,453,26,38,37,153,206,145,1,195,231,392,596,1050,1076,1114,1151,1304,1510,11454599,11454879,11454914,11455157,11455434,11455887,11455914,11455953,11456545,11456884,11457163,
67231043000052621+AB03320538318362chr1530000224114187071142167265,43,55,86,132,23,18,23,66,121,207,339,11418707,11418714,11419045,11420283,11421445,11421649,
67613352639143334465+AB095497145991456chr163001438412032629120345086427,204,197,222,274,90,9,436,641,838,1091,1366,12032629,12033144,12033437,12033741,12034144,12034418,
7484733000011+AB0465734760476chr213188378721390645213911222463,13,0,463,21390645,21391109,
6894341639000194-AB03320354739528chr222881069113715896137164792340,149,19,359,13715896,13716330,
782409340113261-AB0955004181418chr5337921142587945125880128533,14,174,106,89,0,34,48,222,328,25879451,25879484,25879592,25879844,25880039,
6994382355161227+AB03320255312541chr6265766151500372115004245853,92,11,81,35,26,54,165,12,68,160,172,255,294,321,376,15003721,15003774,15003868,15003879,15003960,15004000,15004026,15004080,

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