Schema for xenoRefSeqAli
  Database: hetGla2    Primary Table: xenoRefSeqAli    Row Count: 536,763   Data last updated: 2020-08-19
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 585smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 551int(10) unsigned Number of bases that match that aren't repeats
misMatches 123int(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 3int(10) unsigned Number of inserts in query
qBaseInsert 435int(10) unsigned Number of bases inserted in query
tNumInsert 6int(10) unsigned Number of inserts in target
tBaseInsert 7318int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001107198varchar(255) Query sequence name
qSize 5060int(10) unsigned Query sequence size
qStart 1698int(10) unsigned Alignment start position in query
qEnd 2807int(10) unsigned Alignment end position in query
tName AHKG01109621varchar(255) Target sequence name
tSize 44935int(10) unsigned Target sequence size
tStart 3898int(10) unsigned Alignment start position in target
tEnd 11890int(10) unsigned Alignment end position in target
blockCount 7int(10) unsigned Number of blocks in alignment
blockSizes 30,111,54,102,194,136,47,longblob Size of each block
qStarts 1698,1869,2167,2221,2323,25...longblob Start of each block in query.
tStarts 3898,4063,4370,7275,8526,11...longblob Start of each block in target.

Connected Tables and Joining Fields
        hetGla2.xenoMrna.qName (via xenoRefSeqAli.qName)
      hetGla2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      hetGla2.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
58555112300343567318++NM_001107198506016982807AHKG0110962144935389811890730,111,54,102,194,136,47,1698,1869,2167,2221,2323,2517,2760,3898,4063,4370,7275,8526,11555,11843,
58558813000229847128++NM_001319224337022093225AHKG01109621449354044118905150,103,194,224,47,2209,2582,2685,2879,3178,4044,7274,8526,11555,11843,
58558613000229847130++NM_003686320820493063AHKG01109621449354044118905150,103,194,222,47,2049,2422,2525,2719,3016,4044,7274,8526,11557,11843,
58558813000229847128++NM_006027321020493065AHKG01109621449354044118905150,103,194,224,47,2049,2422,2525,2719,3018,4044,7274,8526,11555,11843,
661510800033663906++NM_00267735245631JH60205734776858997921899837147123,177,90,51,40,16,93,5,128,305,401,452,497,538,9979218,9981298,9981665,9983476,9983528,9983574,9983621,
58549710900329767184++NM_012012550619252828AHKG0110962144935410011890789,10,28,102,194,136,47,1925,2024,2215,2243,2345,2539,2781,4100,4205,4396,7275,8526,11555,11843,
5858223000000++NM_001318984241223072412AHKG011096214493511586116911105,2307,11586,
6628283922002611155675724+-NM_00130916410320010320JH60208420331017100985351018346465173,152,169,113,126,224,83,134,88,102,43,54,264,99,162,12,208,211,154,2093,209,155,95,12,57,187,86,117,69,238,95,102,202,204,113 ...0,276,428,597,710,836,1060,1143,1277,1365,1473,1516,1570,2092,2200,2362,2404,2612,2823,2980,5073,5282,5437,5575,6031,6091,6278,6 ...10147553,10168617,10169955,10171868,10175502,10177260,10180468,10181160,10181374,10182562,10182664,10186524,10189559,10190072,10 ...
58560812900333957168+-NM_001319224337022093285AHKG011096214493532988408936150,103,194,224,42,24,2209,2582,2685,2879,3178,3261,4042,7272,8524,11553,11841,11923,
58560612900333957170+-NM_003686320820493123AHKG011096214493532988408936150,103,194,222,42,24,2049,2422,2525,2719,3016,3099,4042,7272,8524,11555,11841,11923,

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