Schema for xenoRefSeqAli
  Database: rn5    Primary Table: xenoRefSeqAli    Row Count: 219,545   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 587smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 501int(10) unsigned range Number of bases that match that aren't repeats
misMatches 207int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 63int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 63int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001099577varchar(255) values Query sequence name
qSize 2568int(10) unsigned range Query sequence size
qStart 1728int(10) unsigned range Alignment start position in query
qEnd 2499int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 290094216int(10) unsigned range Target sequence size
tStart 322989int(10) unsigned range Alignment start position in target
tEnd 323760int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 330,378,longblob   Size of each block
qStarts 1728,2121,longblob   Start of each block in query.
tStarts 322989,323382,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)
      rn5.all_est.qName (via xenoRefSeqAli.qName)
      rn5.all_mrna.qName (via xenoRefSeqAli.qName)
      rn5.refGene.name (via xenoRefSeqAli.qName)
      rn5.refSeqAli.qName (via xenoRefSeqAli.qName)
      rn5.xenoMrna.qName (via xenoRefSeqAli.qName)
      rn5.xenoRefFlat.name (via xenoRefSeqAli.qName)
      rn5.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58750120700163163++NM_001099577256817282499chr12900942163229893237602330,378,1728,2121,322989,323382,
1773367319002553533106198++NM_00138265244352144435chr151146271401090909501092008344146,45,45,120,179,165,201,142,122,149,136,29,127,138,64,9,9,78,71,241,78,33,37,119,15,144,148,36,76,33,39,96,76,63,37,47,78,164,8 ...214,337,400,527,673,852,1017,1218,1360,1482,1631,1774,1805,1933,2076,2141,2150,2192,2270,2341,2583,2672,2705,2742,2924,2939,3087 ...109090950,109091080,109091145,109091274,109091421,109146445,109156296,109159685,109159828,109167035,109198039,109198176,10919820 ...
1773497320002553535106067++NM_00138264946342824634chr151146271401090909501092008344346,45,45,120,179,165,201,142,122,154,36,95,131,29,127,138,64,9,9,78,71,241,78,33,37,119,15,144,148,36,76,33,39,96,76,63,37,47,78 ...282,405,468,595,741,920,1085,1286,1428,1550,1704,1740,1835,1973,2004,2132,2275,2340,2349,2391,2469,2540,2782,2871,2904,2941,3123 ...109090950,109091080,109091145,109091274,109091421,109146445,109156296,109159685,109159828,109167035,109173892,109175209,10919804 ...
59018102800027748235+-NR_038052258152172chr12900942167334317437565224,486,297,125,958,5,280,792,1089,1214,289350460,289353979,289354491,289358848,289359827,
5901754286000028285+-NR_104384245762046chr12900942167334317437563282,802,956,6,288,1090,289350460,289353986,289359829,
59021753140025877714+-NM_001103366254702547chr12900942167334797436828196,165,73,802,227,121,431,474,0,196,418,491,1294,1521,1642,2073,289350534,289353291,289353513,289353986,289355702,289358857,289359829,289360263,
59021063250027967732+-NM_001205282255002510chr12900942167335197436827206,158,47,806,222,124,868,0,206,429,490,1296,1518,1642,289350534,289353301,289353524,289353985,289355704,289358854,289359829,
606621000000++NR_003032121063chr129009421628247592824822163,0,2824759,
922624850027149031385641+-NM_0104004265274264chr1290094216283716532255533436,52,39,25,112,103,45,158,33,36,33,38,370,91,33,36,144,73,75,78,153,10,11,171,62,42,155,225,40,33,82,33,84,36,27,65,117,156,182,294,399,479,749,1001,1043,1147,1198,1583,1674,1709,1782,1926,2033,2124,2212,2374,2401,2423,2652,2714,3043,3288 ...286868663,286868699,287055091,287055441,287055466,287057149,287057281,287057646,287059047,287060700,287060741,287060845,28706089 ...
756559600768779133++NM_02997518199801799chr1290094216284110129209851193,36,142,186,61,25,22,5,13,129,39,980,1084,1140,1282,1471,1532,1558,1584,1589,1630,1760,2841101,2841204,2841257,2841400,2841586,2920721,2920746,2920771,2920777,2920817,2920946,

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