Schema for all_mrna
  Database: felCat4    Primary Table: all_mrna    Row Count: 3,557   Data last updated: 2020-08-21
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 602smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 549int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1int(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 4int(10) unsigned range Number of inserts in target
tBaseInsert 5232int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName JV728505varchar(255) values Query sequence name
qSize 579int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 550int(10) unsigned range Alignment end position in query
tName chrA1varchar(255) values Target sequence name
tSize 279330936int(10) unsigned range Target sequence size
tStart 2324084int(10) unsigned range Alignment start position in target
tEnd 2329866int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 86,5,110,123,226,longblob   Size of each block
qStarts 0,86,91,201,324,longblob   Start of each block in query.
tStarts 2324084,2324171,2324358,232...longblob   Start of each block in target.

Connected Tables and Joining Fields
        felCat4.all_est.qName (via all_mrna.qName)
      felCat4.mrnaOrientInfo.name (via all_mrna.qName)
      felCat4.refGene.name (via all_mrna.qName)
      felCat4.refSeqAli.qName (via all_mrna.qName)
      felCat4.xenoMrna.qName (via all_mrna.qName)
      felCat4.xenoRefGene.name (via all_mrna.qName)
      felCat4.xenoRefSeqAli.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
6025491000045232+JV7285055790550chrA127933093623240842329866586,5,110,123,226,0,86,91,201,324,2324084,2324171,2324358,2329258,2329640,
638287411001165120-JV728935288602886chrA12793309367000241700824688,24,83,2220,96,211,83,160,0,8,32,116,2336,2432,2643,2726,7000241,7000250,7000275,7000358,7004563,7005689,7007707,7008086,
645117530011749929-JV7289961194151194chrA127933093679158017966908919,196,79,198,84,77,230,214,81,0,20,216,295,493,577,654,884,1098,7915801,7915820,7917263,7920758,7935349,7935547,7941114,7951513,7966827,
649944002625+JV729243716115219chrA12793309368492488849259137,79,12,115,125,207,8492488,8492499,8492579,
6523321000015013+EU2865523330333chrA1279330936881144888167942147,186,0,147,8811448,8816608,
671789121021053963642-JV72855896311963chrA127933093611345626113501811118,34,9,33,17,228,175,146,164,20,69,0,18,53,63,97,116,344,519,665,863,883,11345626,11345645,11345679,11345688,11345721,11345738,11346998,11348591,11348961,11350091,11350112,
8590962300713253865160+AB10795510458010444chrA127933093613463589135378683967,225,109,47,52,519,791,29,1052,697,5,10,810,70,42,10,15,22,28,24,29,512,197,10,253,376,61,182,188,171,355,156,145,201,164,139, ...0,67,292,401,599,1363,1882,2673,2702,3756,4453,4458,4468,5278,5348,5390,5400,5415,5437,5469,5493,5522,6208,6405,6415,6830,7206,7 ...13463589,13469876,13476300,13477028,13477913,13484541,13486505,13487297,13487327,13488384,13489082,13489088,13489099,13489910,13 ...
6884135001111487-JV729295849430849chrA12793309361354256913544474360,280,78,0,61,341,13542569,13542629,13544396,
68837113002741378-JV729294864473864chrA12793309361354258613544348669,20,19,15,191,70,0,75,95,114,130,321,13542586,13542662,13542683,13542703,13542718,13544278,
92190188703416278199-JV729079203702037chrA12793309362055869420838889823,529,242,21,190,99,569,323,0,25,557,799,856,1046,1145,1714,20558694,20558718,20559247,20559490,20559538,20593514,20832610,20838566,

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