Schema for xenoRefSeqAli
  Database: droMoj2    Primary Table: xenoRefSeqAli    Row Count: 263,825   Data last updated: 2020-08-18
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 99int(10) unsigned range Number of bases that match that aren't repeats
misMatches 18int(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 2int(10) unsigned range Number of inserts in query
qBaseInsert 296int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 688int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NR_073908varchar(255) values Query sequence name
qSize 754int(10) unsigned range Query sequence size
qStart 42int(10) unsigned range Alignment start position in query
qEnd 455int(10) unsigned range Alignment end position in query
tName scaffold_1063varchar(255) values Target sequence name
tSize 1022int(10) unsigned range Target sequence size
tStart 15int(10) unsigned range Alignment start position in target
tEnd 820int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 39,54,24,longblob   Size of each block
qStarts 42,116,431,longblob   Start of each block in query.
tStarts 202,342,983,longblob   Start of each block in target.

Connected Tables and Joining Fields
        droMoj2.all_mrna.qName (via xenoRefSeqAli.qName)
      droMoj2.xenoMrna.qName (via xenoRefSeqAli.qName)
      droMoj2.xenoRefFlat.name (via xenoRefSeqAli.qName)
      droMoj2.xenoRefGene.name (via xenoRefSeqAli.qName)
      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)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58599180022962688+-NR_07390875442455scaffold_1063102215820339,54,24,42,116,431,202,342,983,
59061624200313852998++NM_00104492144823951391scaffold_648227389387436147474706189,84,225,210,108,42,395,584,782,1016,1226,1349,743614,743890,745125,745422,747302,747428,
5859444001107111116++NM_00128242438014111620scaffold_11581684781332287,51,411,1569,78,1281,
6872371620021862619+-NM_001304937218122397scaffold_6473169765021337678813377806393,156,150,1812,1944,2247,3598696,3598902,3599564,
73791500164387364++NM_062815225520822182scaffold_64731697650234916422374524,7,30,12,21,2082,2106,2113,2143,2161,34916,35043,420452,420590,422353,
58511055000000++NM_0010129971763473638scaffold_12771517134415091165,473,1344,
58511154000000++NM_0010135831895472637scaffold_12771517134415091165,472,1344,
5856021000000++NM_0010092031836585666scaffold_1277151714191500181,585,1419,
5855625000000++NM_0011278604823612693scaffold_1277151714191500181,612,1419,
5856630000000++NM_0010238813547175271scaffold_1282158010241120196,175,1024,

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