Schema for xenoRefSeqAli
  Database: calJac1    Primary Table: xenoRefSeqAli    Row Count: 519,237   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 587smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 143int(10) unsigned Number of bases that match that aren't repeats
misMatches 31int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 1int(10) unsigned Number of inserts in query
qBaseInsert 69int(10) unsigned Number of bases inserted in query
tNumInsert 1int(10) unsigned Number of inserts in target
tBaseInsert 102int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_024654varchar(255) Query sequence name
qSize 6627int(10) unsigned Query sequence size
qStart 6383int(10) unsigned Alignment start position in query
qEnd 6626int(10) unsigned Alignment end position in query
tName Contig1989varchar(255) Target sequence name
tSize 388062int(10) unsigned Target sequence size
tStart 280233int(10) unsigned Alignment start position in target
tEnd 280509int(10) unsigned Alignment end position in target
blockCount 2int(10) unsigned Number of blocks in alignment
blockSizes 102,72,longblob Size of each block
qStarts 6383,6554,longblob Start of each block in query.
tStarts 107553,107757,longblob Start of each block in target.

Connected Tables and Joining Fields
        calJac1.all_est.qName (via xenoRefSeqAli.qName)
      calJac1.all_mrna.qName (via xenoRefSeqAli.qName)
      calJac1.refGene.name (via xenoRefSeqAli.qName)
      calJac1.refSeqAli.qName (via xenoRefSeqAli.qName)
      calJac1.xenoMrna.qName (via xenoRefSeqAli.qName)
      calJac1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      calJac1.xenoRefGene.name (via xenoRefSeqAli.qName)
      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)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58714331001691102+-NM_024654662763836626Contig19893880622802332805092102,72,6383,6554,107553,107757,
585417821900131402675749++NM_001287757455114538Contig024161869088105436181,40,47,72,43,72,41,115,92,71,92,109,105,100,387,16,204,19,144,45,65,54,46,308,201,198,42,52,347,95,199,118,27,154,45,451,1,182,223,270,346,429,501,542,657,749,820,912,1021,1126,1226,1618,1634,1838,1857,2001,2047,2116,2170,2216,2543,2744,2942,2988,30 ...908,1090,1130,6365,6437,21676,21928,32380,35780,44530,52830,60527,75311,77494,77727,78114,78132,78340,78361,78507,78552,78617,78 ...
58539642090011962475973++NM_015115428314270Contig024161869088105433181,40,47,68,41,115,92,71,92,109,100,387,16,204,19,144,45,65,54,46,308,201,198,42,52,347,95,199,118,27,154,45,451,1,182,223,270,338,379,494,586,657,749,858,958,1350,1366,1570,1589,1733,1779,1848,1902,1948,2275,2476,2674,2720,2772,3142,3237,34 ...908,1090,1130,21680,21928,32380,35780,44530,52830,60527,77494,77727,78114,78132,78340,78361,78507,78552,78617,78672,78723,79053, ...
5851912252002517863177816++NM_001190733403803950Contig024161861006809864033,83,70,41,115,92,71,92,109,100,77,100,22,10,146,38,34,66,24,69,96,54,15,6,91,15,39,11,36,18,14,14,11,50,75,65,43,81,20,18,0,83,166,236,277,392,484,555,647,756,856,933,1044,1066,1091,1242,1287,1336,1788,1875,1944,2371,2451,2468,2475,2571,2590,3040,318 ...1006,1092,21678,21928,32380,35780,44530,52830,60527,77494,77727,77806,77913,77936,77964,78110,78148,78209,78726,78798,78868,7930 ...
5852017252002517863277711++NM_178896414304055Contig024161861006809864133,83,70,41,115,92,71,92,109,105,100,77,100,22,10,146,38,34,66,24,69,96,54,15,6,91,15,39,11,36,18,14,14,11,50,75,65,43,81,20,18,0,83,166,236,277,392,484,555,647,756,861,961,1038,1149,1171,1196,1347,1392,1441,1893,1980,2049,2476,2556,2573,2580,2676,2695,314 ...1006,1092,21678,21928,32380,35780,44530,52830,60527,75311,77494,77727,77806,77913,77936,77964,78110,78148,78209,78726,78798,7886 ...
5851921236001818672877716++NM_0011083594146284052Contig024161861092809653483,71,40,115,92,74,89,109,105,100,180,25,32,40,44,54,38,55,66,155,18,52,18,19,48,12,33,17,12,14,49,75,108,115,28,111,182,222,337,429,503,592,701,806,906,1089,1114,1146,1186,1230,1289,1334,1393,1936,2223,2419,2510,2534,2608,3085,3291,3637, ...1092,21678,21929,32380,35780,44530,52833,60527,75311,77494,77727,77911,77937,77970,78011,78056,78110,78148,78209,78803,79092,793 ...
585394721200121082575417++NM_001287755428444271Contig024161861478810543538,34,72,2,71,41,115,92,71,92,109,105,100,387,16,204,19,144,45,65,54,46,308,201,198,42,52,347,95,199,118,27,154,45,451,4,51,89,161,163,234,275,390,482,553,645,754,859,959,1351,1367,1571,1590,1734,1780,1849,1903,1949,2276,2477,2675,2721,2773,3143,3 ...1478,1516,1550,1776,21677,21928,32380,35780,44530,52830,60527,75311,77494,77727,78114,78132,78340,78361,78507,78552,78617,78672, ...
5851920237002417363057155++NM_0011907344078973990Contig0241618621674809863974,41,115,92,71,92,109,105,100,77,100,22,10,146,38,34,66,24,69,96,54,15,6,91,15,39,11,36,18,14,14,11,50,75,65,43,81,20,18,97,171,212,327,419,490,582,691,796,896,973,1084,1106,1131,1282,1327,1376,1828,1915,1984,2411,2491,2508,2515,2611,2630,3080,3228, ...21674,21928,32380,35780,44530,52830,60527,75311,77494,77727,77806,77913,77936,77964,78110,78148,78209,78726,78798,78868,79302,79 ...
5858713900001055276++NM_00107610010481131023Contig0241618621676778621173,40,115,95,68,92,82,5,105,100,135,113,186,226,341,436,504,596,678,683,788,888,21676,21929,32380,35780,44533,52830,73174,73752,75311,77494,77727,
58557816300381955365++NM_001032366310696918Contig0241618621680777861060,21,69,55,74,89,109,105,103,56,96,165,222,327,382,456,545,654,759,862,21680,21929,32424,35817,44530,52833,60527,75311,77494,77730,

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