Schema for all_mrna
  Database: gorGor5    Primary Table: all_mrna    Row Count: 441   Data last updated: 2019-09-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 895int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 1int(10) unsigned range Number of bases inserted in query
tNumInsert 6int(10) unsigned range Number of inserts in target
tBaseInsert 80764int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName HM486757varchar(255) values Query sequence name
qSize 897int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 897int(10) unsigned range Alignment end position in query
tName CYUI01000001v1varchar(255) values Target sequence name
tSize 36219563int(10) unsigned range Target sequence size
tStart 485469int(10) unsigned range Alignment start position in target
tEnd 567129int(10) unsigned range Alignment end position in target
blockCount 8int(10) unsigned range Number of blocks in alignment
blockSizes 177,213,120,18,59,118,119,72,longblob   Size of each block
qStarts 0,177,390,511,529,588,706,825,longblob   Start of each block in query.
tStarts 485469,486136,496013,496133...longblob   Start of each block in target.

Connected Tables and Joining Fields
        gorGor5.mrnaOrientInfo.name (via all_mrna.qName)
      gorGor5.refGene.name (via all_mrna.qName)
      gorGor5.refSeqAli.qName (via all_mrna.qName)
      gorGor5.xenoRefGene.name (via all_mrna.qName)
      gorGor5.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
7389510011680764+HM4867578970897CYUI01000001v1362195634854695671298177,213,120,18,59,118,119,72,0,177,390,511,529,588,706,825,485469,486136,496013,496133,497069,565319,566159,567057,
6882182001111727333+DQ885673218402184CYUI01000001v13621956313574307136038231961,92,108,77,82,131,186,135,115,146,129,72,57,161,155,176,135,73,92,0,61,153,261,338,420,551,737,872,987,1133,1262,1335,1392,1553,1708,1884,2019,2092,13574307,13575461,13578065,13578895,13580152,13580325,13580896,13582954,13583848,13585149,13585909,13589366,13589438,13594886,13 ...
7272970000016248-DQ8857032970297CYUI01000001v13621956318645858186524032157,140,0,157,18645858,18652263,
7244451001144360-U769134470447CYUI01000003v1328080361828956018294366667,79,39,126,17,118,0,67,146,185,311,329,18289560,18290480,18292502,18292542,18294231,18294248,
7334271000033770+AF1647894290428CYUI01000003v1328080361949685119501049445,69,183,131,0,45,114,297,19496851,19498146,19498310,19500918,
60023874000000+AB445655239102391CYUI01000005v1310277062065871206826212391,0,2065871,
60023601000000+AB445620236102361CYUI01000005v1310277062094349209671012361,0,2094349,
60124360000000+AB445683243602436CYUI01000005v1310277062117572212000812436,0,2117572,
7391100000000-FV5263481100110CYUI01000005v13102770620212421202125311110,0,20212421,
602810000000-FV52711681081CYUI01000013v1305361423339662334047181,0,2333966,

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