Schema for xenoRefSeqAli
  Database: apiMel1    Primary Table: xenoRefSeqAli    Row Count: 269,970   Data last updated: 2020-08-20
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 423int(10) unsigned range Number of bases that match that aren't repeats
misMatches 177int(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 4int(10) unsigned range Number of inserts in query
qBaseInsert 264int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 14094int(10) unsigned range Number of bases inserted in target
strand ++char(2) values + or - for strand. First character query, second target (optional)
qName NM_001258462varchar(255) values Query sequence name
qSize 2688int(10) unsigned range Query sequence size
qStart 481int(10) unsigned range Alignment start position in query
qEnd 1345int(10) unsigned range Alignment end position in query
tName Group6.13varchar(255) values Target sequence name
tSize 380095int(10) unsigned range Target sequence size
tStart 190495int(10) unsigned range Alignment start position in target
tEnd 205189int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 129,35,181,51,45,81,78,longblob   Size of each block
qStarts 481,652,687,868,922,1111,1267,longblob   Start of each block in query.
tStarts 190495,190624,190951,196464...longblob   Start of each block in target.

Connected Tables and Joining Fields
        apiMel1.all_est.qName (via xenoRefSeqAli.qName)
      apiMel1.all_mrna.qName (via xenoRefSeqAli.qName)
      apiMel1.xenoMrna.qName (via xenoRefSeqAli.qName)
      apiMel1.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
586423177004264514094++NM_00125846226884811345Group6.133800951904952051897129,35,181,51,45,81,78,481,652,687,868,922,1111,1267,190495,190624,190951,196464,196542,198677,205111,
586423177004264514094++NM_00125846326464391303Group6.133800951904952051897129,35,181,51,45,81,78,439,610,645,826,880,1069,1225,190495,190624,190951,196464,196542,198677,205111,
5857320000000++NM_001046803237311021195Group1.18804796189193,1102,96,
5857716000000++NM_001246152143310181111Group1.18804796189193,1018,96,
5857221000000++NM_001274711202211421235Group1.18804796189193,1142,96,
5857221000000++NM_001274712211812381331Group1.18804796189193,1238,96,
5857221000000++NM_001274714210612261319Group1.18804796189193,1226,96,
5857221000000++NM_001274715207911991292Group1.18804796189193,1199,96,
5857221000000++NM_00130008118479671060Group1.18804796189193,967,96,
5857221000000++NM_001300082191610361129Group1.18804796189193,1036,96,

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