Schema for xenoRefSeqAli
  Database: xenTro7    Primary Table: xenoRefSeqAli    Row Count: 291,345   Data last updated: 2020-09-02
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 1330int(10) unsigned range Number of bases that match that aren't repeats
misMatches 217int(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 7int(10) unsigned range Number of inserts in query
qBaseInsert 481int(10) unsigned range Number of bases inserted in query
tNumInsert 13int(10) unsigned range Number of inserts in target
tBaseInsert 23813int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001094477varchar(255) values Query sequence name
qSize 2153int(10) unsigned range Query sequence size
qStart 111int(10) unsigned range Alignment start position in query
qEnd 2139int(10) unsigned range Alignment end position in query
tName KB021649varchar(255) values Target sequence name
tSize 215906545int(10) unsigned range Target sequence size
tStart 35439int(10) unsigned range Alignment start position in target
tEnd 60799int(10) unsigned range Alignment end position in target
blockCount 17int(10) unsigned range Number of blocks in alignment
blockSizes 118,127,138,119,218,106,236...longblob   Size of each block
qStarts 111,229,356,494,613,831,937...longblob   Start of each block in query.
tStarts 215845746,215859661,2158598...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)
      xenTro7.all_est.qName (via xenoRefSeqAli.qName)
      xenTro7.all_mrna.qName (via xenoRefSeqAli.qName)
      xenTro7.refGene.name (via xenoRefSeqAli.qName)
      xenTro7.refSeqAli.qName (via xenoRefSeqAli.qName)
      xenTro7.xenoRefFlat.name (via xenoRefSeqAli.qName)
      xenTro7.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58513302170074811323813+-NM_00109447721531112139KB021649215906545354396079917118,127,138,119,218,106,236,21,66,34,55,29,22,64,36,84,74,111,229,356,494,613,831,937,1191,1212,1278,1339,1394,1451,1477,1546,1979,2065,215845746,215859661,215859882,215863439,215866636,215869245,215869357,215869642,215869865,215870110,215870371,215870432,21587046 ...
123388137005135629588++NM_0013523031898104764KB0216492159065455306973353099846754,117,68,82,42,72,90,104,218,368,436,539,587,674,53069733,53074833,53076240,53078579,53081154,53085281,53099756,
1418343119003852669032+-NM_00128695320212611575KB0216492159065451092413691093108637144,40,5,69,123,57,24,261,438,478,483,552,687,1551,106595682,106596007,106596590,106598870,106599431,106601745,106665152,
5855671860000722779+-NM_001079794177797850KB0216492159065453719760729848,127,138,119,216,3,15,87,97,145,272,410,529,745,748,763,215845816,215859661,215859882,215863439,215866636,215867953,215868741,215869261,
5855601910012622781+-NM_00111017289261814KB0216492159065453719760729748,127,138,119,217,15,87,61,109,236,374,493,712,727,215845816,215859661,215859882,215863439,215866636,215868741,215869261,
5855681820000722779+-NM_0012580431800119869KB0216492159065453720060729848,127,138,119,216,3,15,84,119,167,294,432,551,767,770,785,215845816,215859661,215859882,215863439,215866636,215867953,215868741,215869261,
731034547001249249127+-NM_00119932440759162521KB02172048675611122518201054,53,273,154,116,81,302,46,399,103,916,994,1047,1320,1474,1590,1671,1973,2019,2418,234936,277685,277822,295139,295380,295667,303540,319845,394851,485541,
5855631870000722779+-NM_0166891763134884KB0216492159065453720060729848,127,138,119,216,3,15,84,134,182,309,447,566,782,785,800,215845816,215859661,215859882,215863439,215866636,215867953,215868741,215869261,
58554219300115522794+-NM_0317031806136886KB0216492159065453720060729648,127,138,119,216,87,136,184,311,449,568,799,215845816,215859661,215859882,215863439,215866636,215869258,
585409169003187522960+-NM_2134681824122887KB0216492159065453720060738657,14,123,91,215,78,122,179,305,479,570,809,215845807,215859661,215859881,215863468,215866637,215869267,

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