Schema for xenoRefSeqAli
  Database: mm8    Primary Table: xenoRefSeqAli    Row Count: 193,643   Data last updated: 2020-08-22
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 1192smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 668int(10) unsigned range Number of bases that match that aren't repeats
misMatches 158int(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 4int(10) unsigned range Number of inserts in query
qBaseInsert 733int(10) unsigned range Number of bases inserted in query
tNumInsert 6int(10) unsigned range Number of inserts in target
tBaseInsert 33264int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_173526varchar(255) values Query sequence name
qSize 1751int(10) unsigned range Query sequence size
qStart 134int(10) unsigned range Alignment start position in query
qEnd 1693int(10) unsigned range Alignment end position in query
tName chr12varchar(255) values Target sequence name
tSize 120463159int(10) unsigned range Target sequence size
tStart 79617995int(10) unsigned range Alignment start position in target
tEnd 79652085int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 48,69,206,274,132,34,63,longblob   Size of each block
qStarts 134,327,396,602,1183,1473,1...longblob   Start of each block in query.
tStarts 79617995,79629191,79630897,...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)
      mm8.all_est.qName (via xenoRefSeqAli.qName)
      mm8.all_mrna.qName (via xenoRefSeqAli.qName)
      mm8.refGene.name (via xenoRefSeqAli.qName)
      mm8.refSeqAli.qName (via xenoRefSeqAli.qName)
      mm8.xenoMrna.qName (via xenoRefSeqAli.qName)
      mm8.xenoRefFlat.name (via xenoRefSeqAli.qName)
      mm8.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
1192668158004733633264++NM_17352617511341693chr121204631597961799579652085748,69,206,274,132,34,63,134,327,396,602,1183,1473,1630,79617995,79629191,79630897,79633759,79638253,79650988,79652022,
763139240001431813454555+-NM_0010119713727143711chr11970699623204560366249422186,17,54,134,53,76,416,200,1046,82,81,64,24,119,34,45,95,56,106,32,262,197,14,200,220,280,415,468,544,960,1160,2217,2316,2400,2479,2740,2871,2905,2951,3050,3108,3214,3248,3514,193407468,193407655,193407672,193407733,193407867,193407925,193408914,193657980,193862913,193863959,193864043,193864126,19386420 ...
7617731730031473453512+-NM_0010330362343602153chr1197069962320601136614696179,267,262,200,961,77,60,374,644,906,1106,2076,193408493,193408801,193409068,193657980,193862913,193863874,
7611663640043097453797+-NM_0010122582209581897chr119706996232061023661429839,69,243,45,88,195,569,282,58,97,241,571,661,749,944,1615,193408533,193408575,193408815,193409148,193409247,193657985,193862913,193863578,
7613863240021476453620+-NM_00103230729931121969chr119706996232061023661432741,85,255,59,123,200,947,112,153,344,640,699,822,1022,193408530,193408574,193408804,193409124,193409207,193657980,193862913,
768692960053328454165+-NM_0010327141804381535chr119706996232061023661432942,69,258,34,9,77,202,213,261,38,80,231,572,614,656,733,935,1274,193408530,193408575,193408810,193409154,193409202,193409253,193657980,193863269,193863599,
6123711060032074318+-NM_00107775296684768chr119706996236606343661429539,69,243,45,81,84,123,267,597,687,193408533,193408575,193408815,193409148,193409247,
6185982704008293159552+-NM_001195676699106979chr11970699624334235435047318145,46,636,172,11,214,123,813,1222,477,108,257,927,1067,215,160,63,30,0,145,191,827,999,1010,1224,1355,2168,3390,3887,4045,4305,5247,6314,6613,6836,6949,192719489,192719636,192727044,192727800,192729790,192729807,192730024,192730152,192730968,192732193,192732675,192732809,19273306 ...
618270278400202832184740+-NM_173958631806318chr1197069962433468043429062333,384,178,173,308,99,23,4,57,120,73,5,163,33,246,348,78,54,261,84,623,36,103,0,48,432,610,853,1335,1443,1467,1482,1545,1936,2010,2018,2209,2971,3255,4215,4296,4476,4770,5197,6132,6215,192727056,192727101,192727500,192727798,192729853,192730317,192730416,192730439,192730452,192730509,192730885,192730965,19273097 ...
618335888100192114203938+-NM_0012800136461466399chr11970699624334686434286322363,179,186,249,105,99,23,66,192,123,96,314,599,69,108,78,57,93,315,738,66,121,46,429,608,850,1191,1329,1437,1476,1560,1923,2244,2527,2998,3943,4029,4293,4371,4568,4665,5148,6186,6278,192727099,192727500,192727799,192729853,192730185,192730317,192730416,192730452,192730527,192730875,192731190,192731473,19273195 ...

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