Schema for xenoRefSeqAli
  Database: xenTro10    Primary Table: xenoRefSeqAli    Row Count: 170,176   Data last updated: 2021-03-24
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 196int(10) unsigned range Number of bases that match that aren't repeats
misMatches 101int(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 3int(10) unsigned range Number of inserts in query
qBaseInsert 327int(10) unsigned range Number of bases inserted in query
tNumInsert 3int(10) unsigned range Number of inserts in target
tBaseInsert 24102int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001078583varchar(255) values Query sequence name
qSize 1122int(10) unsigned range Query sequence size
qStart 204int(10) unsigned range Alignment start position in query
qEnd 828int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 217471166int(10) unsigned range Target sequence size
tStart 53888int(10) unsigned range Alignment start position in target
tEnd 78287int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 111,36,66,84,longblob   Size of each block
qStarts 204,321,561,744,longblob   Start of each block in query.
tStarts 53888,55059,62337,78203,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)
      xenTro10.all_est.qName (via xenoRefSeqAli.qName)
      xenTro10.all_mrna.qName (via xenoRefSeqAli.qName)
      xenTro10.refGene.name (via xenoRefSeqAli.qName)
      xenTro10.refSeqAli.qName (via xenoRefSeqAli.qName)
      xenTro10.xenoRefFlat.name (via xenoRefSeqAli.qName)
      xenTro10.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585196101003327324102++NM_0010785831122204828chr121747116653888782874111,36,66,84,204,321,561,744,53888,55059,62337,78203,
585263130004549433352++NM_00108269613392381180chr121747116653888876335111,36,105,60,81,238,355,547,796,1099,53888,55059,62286,78215,87552,
585237108003600333400++NM_00128572211612101155chr121747116653888876334114,66,72,93,210,522,756,1062,53888,62289,78203,87540,
73160224902496781162420+-NM_0010924392610242577chr12174711661300431943381577,105,192,96,174,289,404,211,89,42,83,49,16,21,27,24,101,212,404,500,674,966,1370,1621,1953,2001,2182,2429,2499,2550,217276828,217282748,217282853,217283543,217337233,217339001,217339290,217339703,217339960,217340592,217340634,217340758,21734094 ...
58655197001333723+-NM_0010911767528659chr1217471166200921205292557,176,147,124,144,8,68,244,391,515,217265874,217265931,217267553,217269660,217270101,
58711864130056931259577++NM_00114568433623182610chr121747116626312932430513197,163,27,170,160,39,159,242,114,4,135,112,77,318,515,696,1110,1280,1449,1605,1926,2168,2282,2286,2421,2533,263129,263593,265371,274812,276003,277895,282114,284401,285972,286198,288415,294496,324228,
58711244150056571129936++NM_00119987025292612457chr121747116626313529461012191,160,75,174,150,24,156,240,117,3,135,114,261,452,726,1032,1206,1495,1530,1848,2088,2205,2208,2343,263135,263593,265464,274812,276007,278016,282117,284401,285970,286199,288415,294496,
58712374400064561359487++NM_00110786628402752408chr121747116626313832430214184,167,33,147,174,24,165,102,242,115,3,139,110,72,275,459,632,689,1067,1310,1394,1559,1727,1969,2084,2087,2226,2336,263138,263589,265362,265419,274812,276076,277883,282601,284401,285972,286099,288415,294500,324230,
58711713860065731259607++NM_00119296928412222352chr121747116626313832430213184,167,27,147,174,75,102,242,115,3,135,112,74,222,406,585,636,1011,1413,1503,1671,1913,2028,2031,2166,2278,263138,263589,265368,265419,274812,282180,282601,284401,285972,286099,288415,294496,324228,
58710553310043181059784++NM_00128916432542081912chr121747116626313832430811184,164,174,75,102,242,115,3,135,114,78,208,392,565,967,1057,1225,1467,1582,1585,1720,1834,263138,263589,274812,282180,282601,284401,285972,286099,288415,294496,324230,

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