Schema for xenoRefSeqAli
  Database: tarSyr2    Primary Table: xenoRefSeqAli    Row Count: 375,108   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 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 495int(10) unsigned range Number of bases that match that aren't repeats
misMatches 179int(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 4int(10) unsigned range Number of inserts in query
qBaseInsert 1336int(10) unsigned range Number of bases inserted in query
tNumInsert 4int(10) unsigned range Number of inserts in target
tBaseInsert 2938int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_183166varchar(255) values Query sequence name
qSize 2852int(10) unsigned range Query sequence size
qStart 251int(10) unsigned range Alignment start position in query
qEnd 2261int(10) unsigned range Alignment end position in query
tName ABRT02000404v1varchar(255) values Target sequence name
tSize 5914int(10) unsigned range Target sequence size
tStart 140int(10) unsigned range Alignment start position in target
tEnd 3752int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 96,11,171,129,267,longblob   Size of each block
qStarts 251,523,1178,1496,1994,longblob   Start of each block in query.
tStarts 2162,2774,4778,5096,5507,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)
      tarSyr2.all_mrna.qName (via xenoRefSeqAli.qName)
      tarSyr2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      tarSyr2.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585495179004133642938+-NM_18316628522512261ABRT02000404v159141403752596,11,171,129,267,251,523,1178,1496,1994,2162,2774,4778,5096,5507,
585108115800213687202852+-NM_001080488718522407166KE928741v1144887572116632584,15,57,36,27,84,66,44,36,12,69,80,81,6,14,39,234,30,57,22,21,5,12,81,27,2240,2349,2365,2434,2665,2741,2850,2997,3041,3082,3094,3252,3333,3433,3439,3738,5250,5535,5706,5806,5830,5861,5868,6184,7139,2825,2937,2952,3026,3241,3320,3420,3754,3799,3842,3855,3985,4065,4166,4173,4410,5325,5633,5765,5864,5886,5915,5920,6122,6889,
5855267400382274+-NM_0010336161956183865ABRT02000515v174296834297,114,54,135,183,481,629,730,59,356,503,598,
5851759400259158+-NM_001140623942210538ABRT02000515v17422756023215,39,15,210,426,523,140,355,452,
58511160000000+-NM_001279004592133304ABRT02000515v17423805511171,133,191,
5851347900133918347+-NM_1285791142378930KE926493v1322470101178109738299,114,378,816,212732,221178,
58659526900239225++NM_10091813472171120KE936070v12263241696431705323345,444,75,217,577,1045,169643,169989,170457,
5858346000000+-NM_001248812539129258ABRT02000515v17424105391129,129,203,
5867464150061407947958+-NM_001313483433113123880KE940975v189476319672624584510102,81,201,159,114,144,123,144,1,92,1312,1465,1546,1759,1930,3271,3439,3643,3787,3788,648918,649256,649455,649980,652162,688780,694947,697575,697725,697945,
585419630021222109++NM_001133707190239643ABRT02000516v165362653333,421,28,39,175,615,62,188,625,

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