Schema for xenoRefSeqAli
  Database: panPan1    Primary Table: xenoRefSeqAli    Row Count: 492,551   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 88smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 4010int(10) unsigned range Number of bases that match that aren't repeats
misMatches 28int(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 208int(10) unsigned range Number of 'N' bases
qNumInsert 14int(10) unsigned range Number of inserts in query
qBaseInsert 518int(10) unsigned range Number of bases inserted in query
tNumInsert 25int(10) unsigned range Number of inserts in target
tBaseInsert 34384int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NR_147231varchar(255) values Query sequence name
qSize 4764int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 4764int(10) unsigned range Alignment end position in query
tName JH650607varchar(255) values Target sequence name
tSize 16772289int(10) unsigned range Target sequence size
tStart 15960158int(10) unsigned range Alignment start position in target
tEnd 15998788int(10) unsigned range Alignment end position in target
blockCount 26int(10) unsigned range Number of blocks in alignment
blockSizes 226,95,105,49,33,88,58,122,...longblob   Size of each block
qStarts 0,226,321,426,475,508,596,6...longblob   Start of each block in query.
tStarts 773501,785506,789889,792289...longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      panPan1.all_mrna.qName (via xenoRefSeqAli.qName)
      panPan1.refGene.name (via xenoRefSeqAli.qName)
      panPan1.refSeqAli.qName (via xenoRefSeqAli.qName)
      panPan1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      panPan1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
884010280208145182534384+-NR_147231476404764JH65060716772289159601581599878826226,95,105,49,33,88,58,122,82,96,85,124,143,230,232,186,141,16,373,168,389,30,111,458,348,258,0,226,321,426,475,508,596,667,832,914,1010,1095,1219,1362,1636,1902,2121,2310,2390,2798,2967,3402,3469,3620,4109,4506,773501,785506,789889,792289,792510,793779,796955,804607,804772,805107,805314,806108,807088,808730,809004,809268,809487,809676,80 ...
5852241004217198+-NM_001024457671121962479AJFE0100000711005929662175,101,2196,2378,134,407,
5852241004217198+-NM_001078170552822422525AJFE0100000711005929662175,101,2242,2424,134,407,
58520226022191100+-NM_0011916041027722802539AJFE0100000711006159652174,76,2280,2463,135,409,
58520226022191100+-NM_011240947723362595AJFE0100000711006159652174,76,2336,2519,135,409,
5851953502217198+-NM_1745921000922082467AJFE0100000711006159652174,78,2208,2389,135,407,
5852211002217198+-NM_001037866330427403000AJFE0100000711006159662175,78,2740,2922,134,407,
5852211002217198+-NM_001123363764027403000AJFE0100000711006159662175,78,2740,2922,134,407,
5852211002217198+-NM_001164463729923992659AJFE0100000711006159662175,78,2399,2581,134,407,
5852211002217198+-NM_032260332527403000AJFE0100000711006159662175,78,2740,2922,134,407,

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