Schema for xenoRefSeqAli
  Database: rheMac8    Primary Table: xenoRefSeqAli    Row Count: 241,830   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 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1353int(10) unsigned range Number of bases that match that aren't repeats
misMatches 113int(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 5int(10) unsigned range Number of inserts in query
qBaseInsert 40int(10) unsigned range Number of bases inserted in query
tNumInsert 8int(10) unsigned range Number of inserts in target
tBaseInsert 1474int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NR_026874varchar(255) values Query sequence name
qSize 1506int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1506int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 225584828int(10) unsigned range Target sequence size
tStart 15743int(10) unsigned range Alignment start position in target
tEnd 18683int(10) unsigned range Alignment end position in target
blockCount 12int(10) unsigned range Number of blocks in alignment
blockSizes 57,105,45,138,50,41,26,111,...longblob   Size of each block
qStarts 0,57,162,220,358,408,449,49...longblob   Start of each block in query.
tStarts 225566145,225566242,2255663...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)
      rheMac8.all_est.qName (via xenoRefSeqAli.qName)
      rheMac8.all_mrna.qName (via xenoRefSeqAli.qName)
      rheMac8.refGene.name (via xenoRefSeqAli.qName)
      rheMac8.refSeqAli.qName (via xenoRefSeqAli.qName)
      rheMac8.xenoRefFlat.name (via xenoRefSeqAli.qName)
      rheMac8.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58513531130054081474+-NR_026874150601506chr122558482815743186831257,105,45,138,50,41,26,111,296,341,138,118,0,57,162,220,358,408,449,492,603,900,1242,1388,225566145,225566242,225566349,225566416,225567023,225567074,225567723,225567755,225568192,225568488,225568829,225568967,
58513111120042371517+-NR_122045144601446chr122558482815743186831157,105,45,138,50,41,94,296,341,138,118,0,57,162,220,358,408,449,543,840,1182,1328,225566145,225566242,225566349,225566416,225567023,225567074,225567772,225568192,225568488,225568829,225568967,
11972535900071511424767+-NM_1522212817412817chr109284408880309598803369902017,58,123,88,111,149,229,171,149,193,140,65,22,226,320,170,145,83,45,121,41,67,151,274,362,473,622,851,1022,1171,1364,1504,1569,1595,1821,2155,2326,2471,2649,2696,12507098,12507115,12507202,12510304,12521345,12521576,12523665,12524533,12525968,12530345,12530630,12531545,12533255,12533277,12 ...
5855561590051268815749++NM_001030877282801983chr12255848282542241886987,53,124,120,78,15,44,77,117,0,258,311,843,963,1068,1695,1739,1866,25422,30426,34223,40222,40486,40661,41096,41345,41769,
5851224331007143136456++NM_0013054462116241722chr1225584828342214223215127,23,130,163,118,79,21,273,159,27,99,105,87,90,54,24,151,243,373,536,654,747,780,1053,1218,1269,1368,1473,1572,1668,34221,37221,37455,39245,40224,40486,40652,40682,40958,41120,41379,41775,41983,42088,42178,
110818188200222611050++NM_182981192201922chr207497148168651318686642689131,99,137,192,92,1091,77,13,68,0,131,230,367,559,651,1763,1840,1854,68651318,68655687,68657286,68658891,68659304,68663003,68664094,68664187,68664200,
58523361410091782612467+-NR_0028262747502705chr122558482842285572292967,79,122,50,24,58,121,91,79,111,114,189,5,129,112,112,104,144,114,25,43,44,28,126,46,59,67,78,136,50,117,196,318,414,438,496,617,708,787,898,1012,1201,1206,1335,1447,1559,1663,1807,1923,1993,2055,2099,2140,2267,2313,2375,2482, ...225527599,225527678,225529364,225529490,225529662,225529689,225530354,225530623,225532471,225532662,225533227,225533907,22553436 ...
58517223070082241912473+-NM_0010343262535392292chr1225584828427245722621155,175,61,121,91,75,115,114,189,142,110,114,102,147,110,19,42,6,12,114,15,39,194,425,486,607,698,773,888,1002,1191,1333,1443,1557,1659,1807,1918,1989,2073,2084,2142,2277,225527602,225529364,225529686,225530354,225530623,225532471,225532658,225533227,225533907,225534367,225535284,225538134,22553850 ...
58514433250075491612711+-NM_0010338972485412358chr122558482842750572291778,183,27,45,115,87,83,111,114,189,142,110,116,151,116,23,78,41,202,510,543,597,712,799,882,993,1107,1296,1438,1548,1757,1908,2026,2280,225527599,225529361,225529669,225529699,225530360,225530623,225532467,225532662,225533227,225533907,225534367,225535284,22553813 ...
58515283720053431912581+-NM_0213032785482291chr1225584828427565723720101,205,27,39,122,91,76,111,107,196,142,110,114,94,152,3,111,3,24,72,48,231,455,488,535,657,748,824,935,1042,1238,1380,1490,1604,1698,1850,1853,1964,1967,2219,225527591,225529363,225529669,225529699,225530353,225530623,225532474,225532662,225533227,225533900,225534367,225535284,22553813 ...

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