Schema for xenoMrna
  Database: mm39    Primary Table: xenoMrna    Row Count: 4,534,968   Data last updated: 2020-08-17
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 608smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 203int(10) unsigned Number of bases that match that aren't repeats
misMatches 17int(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 5int(10) unsigned Number of inserts in query
qBaseInsert 61int(10) unsigned Number of bases inserted in query
tNumInsert 6int(10) unsigned Number of inserts in target
tBaseInsert 73int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName JV618729varchar(255) Query sequence name
qSize 308int(10) unsigned Query sequence size
qStart 27int(10) unsigned Alignment start position in query
qEnd 308int(10) unsigned Alignment end position in query
tName chr1varchar(255) Target sequence name
tSize 195154279int(10) unsigned Target sequence size
tStart 3064597int(10) unsigned Alignment start position in target
tEnd 3064890int(10) unsigned Alignment end position in target
blockCount 7int(10) unsigned Number of blocks in alignment
blockSizes 22,15,18,14,29,45,77,longblob Size of each block
qStarts 27,58,101,125,139,173,231,longblob Start of each block in query.
tStarts 192089389,192089424,1920894...longblob Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via xenoMrna.qName)
      hgFixed.gbMiscDiff.acc (via xenoMrna.qName)
      hgFixed.gbSeq.acc (via xenoMrna.qName)
      hgFixed.gbWarn.acc (via xenoMrna.qName)
      hgFixed.imageClone.acc (via xenoMrna.qName)
      mm39.all_est.qName (via xenoMrna.qName)
      mm39.all_mrna.qName (via xenoMrna.qName)
      mm39.refGene.name (via xenoMrna.qName)
      mm39.refSeqAli.qName (via xenoMrna.qName)
      mm39.xenoRefFlat.name (via xenoMrna.qName)
      mm39.xenoRefGene.name (via xenoMrna.qName)
      mm39.xenoRefSeqAli.qName (via xenoMrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
6082031700561673+-JV61872930827308chr119515427930645973064890722,15,18,14,29,45,77,27,58,101,125,139,173,231,192089389,192089424,192089467,192089490,192089513,192089548,192089605,
61015422000011+-JL976967490302478chr119515427932773583277535247,129,302,349,191876744,191876792,
61076800115111++LE011052274174273chr119515427932805903280685239,45,174,228,3280590,3280640,
610871129001870116675++JU53179428428552556chr1195154279328377332854482055,21,28,66,26,9,91,47,28,132,173,51,21,5,43,5,18,72,42,67,855,1014,1155,1185,1265,1313,1351,1473,1541,1600,1761,1935,1992,2063,2068,2112,2118,2182,2435,2489,3283773,3283909,3284048,3284076,3284160,3284186,3284226,3284343,3284412,3284473,3284634,3284809,3284865,3284937,3284944,3284987, ...
6102473900319217+-JU33838333621326chr119515427932842253284528557,64,48,25,92,21,92,156,208,234,191869751,191869824,191869889,191869937,191869962,
6102473900319217+-JV49370237557362chr119515427932842253284528557,64,48,25,92,57,128,192,244,270,191869751,191869824,191869889,191869937,191869962,
61018724002511+-JV4558932214220chr119515427932842363284448457,48,25,81,4,61,113,139,191869831,191869889,191869937,191869962,
761858202001989414205723+-JV706230296102954chr1195154279328423634920192295,961,76,36,16,15,60,69,46,12,9,14,43,47,41,136,109,57,64,48,25,81,0,95,1065,1342,1449,1471,1658,1726,1803,1975,1988,2168,2194,2321,2371,2413,2550,2660,2731,2795,2847,2873,191662260,191867088,191868049,191868299,191868603,191868624,191868761,191868830,191868905,191869084,191869109,191869267,19186929 ...
6101462300114217+-JV53246122819202chr119515427932843423284528357,64,48,19,90,154,191869751,191869824,191869889,
762121225001897714454454+-AB067476344113324chr11951542793284342374114222106,112,104,200,961,73,16,19,60,69,46,12,9,14,43,47,41,136,109,57,64,48,1,110,268,372,572,1542,1940,1957,2139,2207,2284,2456,2469,2649,2675,2802,2852,2894,3031,3141,3212,3276,191413137,191413243,191413401,191662155,191867088,191868049,191868603,191868619,191868761,191868830,191868905,191869084,19186910 ...

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