Schema for all_mrna
  Database: panPan2    Primary Table: all_mrna    Row Count: 614   Data last updated: 2020-08-22
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 654smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 105int(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 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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName FV526201varchar(255) values Query sequence name
qSize 110int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 105int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 229774977int(10) unsigned range Target sequence size
tStart 9141312int(10) unsigned range Alignment start position in target
tEnd 9141417int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 105,longblob   Size of each block
qStarts 5,longblob   Start of each block in query.
tStarts 9141312,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      panPan2.mrnaOrientInfo.name (via all_mrna.qName)
      panPan2.refGene.name (via all_mrna.qName)
      panPan2.refSeqAli.qName (via all_mrna.qName)
      panPan2.xenoRefGene.name (via all_mrna.qName)
      panPan2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
6541050000000-FV5262011100105chr1229774977914131291414171105,5,9141312,
654220000000-FV52461822022chr122977497791413749141396122,0,9141374,
654220000000-FW31351522022chr122977497791413749141396122,0,9141374,
10112073300001121661+EF692499207602076chr1229774977559114545593519112207,192,124,134,142,197,184,174,149,178,182,213,0,207,399,523,657,799,996,1180,1354,1503,1681,1863,55911454,55915462,55918142,55923895,55924268,55927612,55928963,55929668,55930131,55931095,55932984,55934978,
1090220000000-FW31344122022chr12297749776619465666194678122,0,66194656,
1136230000000-FW31347423023chr12297749777227388972273912123,0,72273889,
149163640000812576+E01793166751645chr12297749777994385479958070941,467,37,196,150,172,101,175,301,5,46,513,550,746,896,1068,1169,1344,79943854,79944176,79948246,79949019,79949367,79953320,79954555,79956707,79957769,
149106020000712295+E01792106201062chr122977497779944459799578168184,37,196,150,172,101,175,47,0,184,221,417,567,739,840,1015,79944459,79948246,79949019,79949367,79953320,79954555,79956707,79957769,
1433750000000+DM17611075075chr1229774977111204126111204201175,0,111204126,
1433750000000+FV52643975075chr1229774977111204126111204201175,0,111204126,

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