Schema for xenoRefSeqAli
  Database: sarHar1    Primary Table: xenoRefSeqAli    Row Count: 502,601   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 301int(10) unsigned Number of bases that match that aren't repeats
misMatches 101int(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 1int(10) unsigned Number of inserts in query
qBaseInsert 33int(10) unsigned Number of bases inserted in query
tNumInsert 3int(10) unsigned Number of inserts in target
tBaseInsert 5457int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001245365varchar(255) Query sequence name
qSize 874int(10) unsigned Query sequence size
qStart 197int(10) unsigned Alignment start position in query
qEnd 632int(10) unsigned Alignment end position in query
tName chr1_GL834412_randomvarchar(255) Target sequence name
tSize 2180112int(10) unsigned Target sequence size
tStart 183608int(10) unsigned Alignment start position in target
tEnd 189467int(10) unsigned Alignment end position in target
blockCount 4int(10) unsigned Number of blocks in alignment
blockSizes 72,69,88,173,longblob Size of each block
qStarts 197,269,371,459,longblob Start of each block in query.
tStarts 183608,184755,184869,189294,longblob Start of each block in target.

Connected Tables and Joining Fields
        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)
      sarHar1.all_mrna.qName (via xenoRefSeqAli.qName)
      sarHar1.refGene.name (via xenoRefSeqAli.qName)
      sarHar1.refSeqAli.qName (via xenoRefSeqAli.qName)
      sarHar1.xenoMrna.qName (via xenoRefSeqAli.qName)
      sarHar1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      sarHar1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
5863011010013335457++NM_001245365874197632chr1_GL834412_random2180112183608189467472,69,88,173,197,269,371,459,183608,184755,184869,189294,
586472149005132711217++NM_0010059501396190943chr1_GL834412_random2180112183608195446872,57,93,171,57,51,31,89,190,271,373,466,697,760,823,854,183608,184764,184866,189296,191909,193140,195230,195357,
586488154003111811196++NM_0010172091257181934chr1_GL834412_random2180112183608195446972,69,91,173,57,2,55,30,93,181,253,364,455,688,745,747,811,841,183608,184755,184866,189294,191909,192301,193136,195227,195353,
586503142003108811193++NM_0010953811272188941chr1_GL834412_random2180112183608195446972,69,91,173,57,2,55,31,95,188,260,371,462,695,752,754,815,846,183608,184755,184866,189294,191909,192301,193136,195224,195351,
586386138002199511314++NM_0012924241177193916chr1_GL834412_random2180112183608195446672,93,171,56,36,96,193,346,439,728,784,820,183608,184866,189296,193135,195218,195350,
58664112200234914245++NR_03361110062061003chr1_GL834412_random21801121836081986161072,84,93,171,62,59,54,30,93,45,206,278,388,481,652,714,773,835,865,958,183608,184755,184866,189296,189883,191911,193138,195227,195353,198571,
58665510900340914250++NM_00103510112112051009chr1_GL834412_random21801121836081986221072,69,105,171,62,60,51,30,93,51,205,277,376,481,652,714,775,835,865,958,183608,184755,184854,189296,189883,191911,193140,195227,195353,198571,
58664611600142914252++NM_00119986813652501054chr1_GL834412_random21801121836081986221072,69,93,171,62,59,63,29,93,51,250,322,433,526,697,759,818,881,910,1003,183608,184755,184866,189296,189883,191911,193138,195228,195353,198571,
5866591440011914211++NM_00124389612522331037chr1_GL834412_random21801121836081986221072,204,171,62,60,50,4,36,93,51,233,305,509,680,742,803,853,857,893,986,183608,184755,189296,189883,191911,193140,193335,195221,195353,198571,
586574185001331014255++NM_00124536812372541046chr1_GL834412_random21801121836081986221172,69,88,173,62,58,54,3,34,95,51,254,326,428,516,689,751,809,863,866,900,995,183608,184755,184869,189294,189883,191911,193137,193225,195221,195351,198571,

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