Schema for xenoRefSeqAli
  Database: canFam1    Primary Table: xenoRefSeqAli    Row Count: 450,935   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 1006smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 64int(10) unsigned range Number of bases that match that aren't repeats
misMatches 25int(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 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 56193int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001366216varchar(255) values Query sequence name
qSize 5119int(10) unsigned range Query sequence size
qStart 147int(10) unsigned range Alignment start position in query
qEnd 236int(10) unsigned range Alignment end position in query
tName chr20varchar(255) values Target sequence name
tSize 61172541int(10) unsigned range Target sequence size
tStart 55195082int(10) unsigned range Alignment start position in target
tEnd 55251364int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 32,57,longblob   Size of each block
qStarts 147,179,longblob   Start of each block in query.
tStarts 5921177,5977402,longblob   Start of each block in target.

Connected Tables and Joining Fields
        canFam1.all_est.qName (via xenoRefSeqAli.qName)
      canFam1.all_mrna.qName (via xenoRefSeqAli.qName)
      canFam1.refGene.name (via xenoRefSeqAli.qName)
      canFam1.refSeqAli.qName (via xenoRefSeqAli.qName)
      canFam1.xenoMrna.qName (via xenoRefSeqAli.qName)
      canFam1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      canFam1.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
100664250000156193+-NM_0013662165119147236chr20611725415519508255251364232,57,147,179,5921177,5977402,
100664250000156193+-NM_0013662205182147236chr20611725415519508255251364232,57,147,179,5921177,5977402,
100664250000156193+-NR_1587645273147236chr20611725415519508255251364232,57,147,179,5921177,5977402,
120963000005148472+-NM_0013662125302158284chr24507320774929261249441210636,19,6,14,25,26,158,194,213,219,233,258,1290867,1291736,1293769,1306428,1306561,1439439,
120963000005148472+-NM_0013662155368158284chr24507320774929261249441210636,19,6,14,25,26,158,194,213,219,233,258,1290867,1291736,1293769,1306428,1306561,1439439,
120963000005148472+-NM_0013662175338158284chr24507320774929261249441210636,19,6,14,25,26,158,194,213,219,233,258,1290867,1291736,1293769,1306428,1306561,1439439,
9248429902282232767178+-NM_00120621231811453173chr11248977933116548318653129111,73,117,126,61,98,80,120,108,66,73,109,132,133,70,88,170,51,52,100,130,81,133,161,172,26,21,25,118,145,256,329,446,572,633,731,811,931,1041,1107,1180,1289,1448,1581,1651,1739,1910,1961,2013,2113,2243,2324,2457,2619,2872,2904,29 ...121711262,121743456,121745299,121746235,121747238,121749243,121751239,121752327,121753512,121754523,121754899,121757190,12175952 ...
9209047505162992667333+-NM_0013083276794102925chr1124897793311689631868452747,108,73,116,117,63,96,82,119,113,64,71,111,132,32,128,70,88,122,27,123,131,80,133,160,3,207,10,246,354,427,549,668,731,827,909,1028,1141,1205,1276,1387,1519,1551,1679,1749,1837,2019,2076,2211,2342,2422,2555,2715,2718,121710948,121711265,121743456,121745299,121746240,121747236,121749243,121751237,121752327,121753511,121754525,121754899,12175718 ...
9206447505162962667359+-NM_0013083296765102896chr1124897793311689631868452747,108,73,116,117,63,96,82,119,113,64,45,111,132,32,128,70,88,122,27,123,131,80,133,160,3,207,10,246,354,427,549,668,731,827,909,1028,1141,1205,1250,1361,1493,1525,1653,1723,1811,1993,2047,2182,2313,2393,2526,2686,2689,121710948,121711265,121743456,121745299,121746240,121747236,121749243,121751237,121752327,121753511,121754525,121754925,12175718 ...
9209047505162962667333+-NM_0088136791102922chr1124897793311689631868452747,108,73,116,117,63,96,82,119,113,64,71,111,132,32,128,70,88,122,27,123,131,80,133,160,3,207,10,246,354,427,549,668,731,827,909,1028,1141,1205,1276,1387,1519,1551,1679,1749,1837,2019,2073,2208,2339,2419,2552,2712,2715,121710948,121711265,121743456,121745299,121746240,121747236,121749243,121751237,121752327,121753511,121754525,121754899,12175718 ...

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