Schema for xenoRefSeqAli
  Database: papAnu4    Primary Table: xenoRefSeqAli    Row Count: 239,647   Data last updated: 2019-05-22
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 1370int(10) unsigned range Number of bases that match that aren't repeats
misMatches 119int(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 13int(10) unsigned range Number of bases inserted in query
tNumInsert 6int(10) unsigned range Number of inserts in target
tBaseInsert 818int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001358689varchar(255) values Query sequence name
qSize 1504int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1502int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 217458864int(10) unsigned range Target sequence size
tStart 6999int(10) unsigned range Alignment start position in target
tEnd 9306int(10) unsigned range Alignment end position in target
blockCount 8int(10) unsigned range Number of blocks in alignment
blockSizes 57,109,108,462,554,122,11,66,longblob   Size of each block
qStarts 0,57,166,274,736,1296,1425,...longblob   Start of each block in query.
tStarts 6999,7305,7490,8084,8547,91...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)
      papAnu4.all_est.qName (via xenoRefSeqAli.qName)
      papAnu4.all_mrna.qName (via xenoRefSeqAli.qName)
      papAnu4.refGene.name (via xenoRefSeqAli.qName)
      papAnu4.refSeqAli.qName (via xenoRefSeqAli.qName)
      papAnu4.xenoRefFlat.name (via xenoRefSeqAli.qName)
      papAnu4.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
5851370119002136818++NM_001358689150401502chr121745886469999306857,109,108,462,554,122,11,66,0,57,166,274,736,1296,1425,1436,6999,7305,7490,8084,8547,9101,9226,9240,
5851384105002136818++NM_177987150401502chr121745886469999306857,109,109,461,554,122,11,66,0,57,166,275,736,1296,1425,1436,6999,7305,7490,8085,8547,9101,9226,9240,
5851451139006534415++NR_027156266010172660chr12174588647299930410115,151,64,44,459,555,25,35,59,83,1017,1132,1323,1389,1433,1892,2450,2478,2514,2577,7299,7490,7676,7740,8087,8547,9102,9127,9162,9221,
585232523900191052030392+-NM_001330306270412670chr121745886451162841183333,46,215,42,124,92,110,76,96,66,134,26,41,48,17,45,90,71,133,65,96,195,45,123,169,13,51,29,52,19,66,51,85,1,35,82,297,340,464,556,666,742,838,904,1039,1065,1112,1161,1178,1226,1317,1391,1533,1598,1694,1890,1935,2069,2262,2276,2327,235 ...217374746,217374784,217374830,217375908,217396437,217397016,217397594,217398155,217401244,217401640,217403672,217405035,21740515 ...
58518021860012811830968+-NM_017891212212070chr121745886451162841182633,46,205,10,113,92,78,96,66,134,26,31,64,96,195,45,123,169,13,51,29,52,19,66,51,85,1,35,82,287,297,410,502,580,676,742,877,903,934,998,1094,1290,1335,1469,1662,1676,1727,1757,1822,1842,1933,1985,217374746,217374784,217374830,217375384,217396448,217397016,217398153,217401244,217401640,217403672,217405035,217405158,21740653 ...
585157515700151871831239+-NM_001302432199201919chr121745886451162841332648,46,49,116,94,76,96,66,134,26,31,64,65,166,33,123,169,14,6,25,27,36,19,66,52,85,0,49,96,145,261,355,431,527,593,728,754,785,849,982,1152,1185,1319,1512,1527,1535,1580,1608,1671,1691,1781,1834,217374731,217374784,217374830,217396445,217397016,217398155,217401244,217401640,217403672,217405035,217405158,217406536,21740660 ...
585159917700101441530915+-NM_001133430197001920chr121745886451168838592230,10,113,94,76,97,64,134,26,31,64,127,177,181,208,56,17,58,20,62,52,79,0,30,40,153,247,323,421,485,620,646,677,741,937,1114,1306,1515,1571,1589,1671,1692,1788,1841,217375005,217375384,217396448,217397016,217398155,217401244,217401642,217403672,217405035,217405158,217406536,217406603,21740673 ...
585113730000215+-NM_210119639441627chr121745886476426766273152,4,30,441,593,597,217382237,217382402,217382408,
5859471110032105346++NR_0388691640901358chr12174588641097801111847159,53,27,171,292,96,260,90,249,302,329,516,996,1098,109780,109953,110327,110355,110531,110823,110924,
5861052000000++NR_1065121114111chr12174588641335871336941107,4,133587,

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