Schema for all_mrna
  Database: fr2    Primary Table: all_mrna    Row Count: 1,406   Data last updated: 2020-05-07
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 589smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1168int(10) unsigned range Number of bases that match that aren't repeats
misMatches 0int(10) unsigned range Number of bases that don't match
repMatches 23int(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 8int(10) unsigned range Number of inserts in target
tBaseInsert 3263int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName AB179548varchar(255) values Query sequence name
qSize 1191int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1191int(10) unsigned range Alignment end position in query
tName chrUnvarchar(255) values Target sequence name
tSize 400509343int(10) unsigned range Target sequence size
tStart 617689int(10) unsigned range Alignment start position in target
tEnd 622143int(10) unsigned range Alignment end position in target
blockCount 9int(10) unsigned range Number of blocks in alignment
blockSizes 162,99,145,123,200,119,124,...longblob   Size of each block
qStarts 0,162,261,406,529,729,848,9...longblob   Start of each block in query.
tStarts 617689,618023,618262,618477...longblob   Start of each block in target.

Connected Tables and Joining Fields
        fr2.all_est.qName (via all_mrna.qName)
      fr2.mrnaOrientInfo.name (via all_mrna.qName)
      fr2.xenoMrna.qName (via all_mrna.qName)
      hgFixed.gbCdnaInfo.acc (via all_mrna.qName)
      hgFixed.gbMiscDiff.acc (via all_mrna.qName)
      hgFixed.gbSeq.acc (via all_mrna.qName)
      hgFixed.gbWarn.acc (via all_mrna.qName)
      hgFixed.imageClone.acc (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
589116802300083263-AB179548119101191chrUn4005093436176896221439162,99,145,123,200,119,124,157,62,0,162,261,406,529,729,848,972,1129,617689,618023,618262,618477,618822,619420,619616,620319,622081,
5919547940118810+AB2569501078221078chrUn4005093438769588788231063,31,57,132,121,179,82,125,49,216,22,85,116,173,305,426,605,687,812,862,876958,877125,877239,877418,877656,877918,878184,878344,878558,878607,
5927101320002721-DQ41300079249792chrUn4005093439615999630633167,76,500,0,167,243,961599,962110,962563,
593122501520001444-EF371366137701377chrUn4005093431096798109861921197,180,0,1197,1096798,1098439,
603519000002417-LC1292295473522chrUn400509343244819624491323254,213,52,25,279,492,2448196,2448558,2449080,
604136815600093357+AY298751142501425chrUn4005093432527117253189910138,45,110,80,168,195,87,30,80,492,0,138,183,293,373,541,736,823,853,933,2527117,2527373,2527921,2528433,2528943,2529173,2530725,2531031,2531062,2531407,
61022721760001915256-AB236415234902349chrUn4005093433287803330540820144,77,151,148,248,250,77,173,136,156,51,123,17,205,75,63,45,64,101,45,0,144,221,372,520,768,1018,1095,1268,1404,1560,1611,1734,1751,1956,2031,2094,2139,2203,2304,3287803,3288041,3288682,3288906,3289139,3289872,3290203,3290716,3290978,3292000,3292583,3292719,3294608,3295303,3298670,3298949, ...
6121933121902741465+AY529485217702160chrUn40050934335406843544302788,121,131,138,171,952,552,0,94,215,346,484,655,1608,3540684,3540772,3541780,3542080,3542224,3542798,3543750,
615157731810008739+AB330136179201761chrUn400509343396113139636319219,151,155,165,115,112,163,242,439,0,219,370,525,690,805,917,1080,1322,3961131,3961424,3961673,3961898,3962158,3962359,3962572,3962852,3963192,
61611220000062324+HF936683112201122chrUn40050934341171274120573781,119,97,340,126,140,219,0,81,200,297,637,763,903,4117127,4118295,4118629,4118921,4119512,4119731,4120354,

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