Schema for xenoRefSeqAli
  Database: ce6    Primary Table: xenoRefSeqAli    Row Count: 33,489   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 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 134int(10) unsigned range Number of bases that match that aren't repeats
misMatches 79int(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 0int(10) unsigned range Number of 'N' bases
qNumInsert 2int(10) unsigned range Number of inserts in query
qBaseInsert 108int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 845int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001192536varchar(255) values Query sequence name
qSize 852int(10) unsigned range Query sequence size
qStart 351int(10) unsigned range Alignment start position in query
qEnd 672int(10) unsigned range Alignment end position in query
tName chrIvarchar(255) values Target sequence name
tSize 15072421int(10) unsigned range Target sequence size
tStart 5251int(10) unsigned range Alignment start position in target
tEnd 6309int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 66,105,42,longblob   Size of each block
qStarts 351,519,630,longblob   Start of each block in query.
tStarts 15066112,15066277,15067128,longblob   Start of each block in target.

Connected Tables and Joining Fields
        ce6.all_est.qName (via xenoRefSeqAli.qName)
      ce6.all_mrna.qName (via xenoRefSeqAli.qName)
      ce6.refGene.name (via xenoRefSeqAli.qName)
      ce6.refSeqAli.qName (via xenoRefSeqAli.qName)
      ce6.xenoMrna.qName (via xenoRefSeqAli.qName)
      ce6.xenoRefFlat.name (via xenoRefSeqAli.qName)
      ce6.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585134790021082845+-NM_001192536852351672chrI1507242152516309366,105,42,351,519,630,15066112,15066277,15067128,
58531716500640962695++NM_20542513532791170chrI1507242174622777997114,39,14,54,135,42,84,279,462,612,795,888,1035,1086,74622,75170,75374,76020,76949,77105,77715,
675177720000399++NM_001336979863437686chrIV174937851185871311859061487,3,60,99,437,524,527,587,11858713,11858821,11858857,11858962,
5853591390000296+-NM_0010025551209243741chrI150724211093631099573126,287,85,243,369,656,14962464,14962641,14962973,
60794261800757991510++NM_00132307228804102549chrX177188542941195294426510216,117,149,208,126,165,69,201,216,93,410,626,800,949,1184,1325,1532,1943,2192,2456,2941195,2941478,2941652,2941850,2942085,2942973,2943189,2943653,2943902,2944172,
585302172001242120+-NM_0011533901047346844chrI150724211093631099573114,268,92,346,484,752,14962464,14962653,14962966,
5853701220024153175+-NM_00116508513151501057chrI15072421109363110030423,127,252,90,150,174,301,967,14962391,14962463,14962641,14962968,
69022971000000++NM_00124268637272372chrII1527932313821786138220861300,72,13821786,
58538515200003144+-NM_001004880103514551chrI15072421109363110044438,122,292,85,14,52,174,466,14962377,14962463,14962636,14962973,
58538515200003144+-NM_0010317886510537chrI15072421109363110044438,122,294,83,0,38,160,454,14962377,14962463,14962636,14962975,

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