Schema for ncbiRefSeqPsl
  Database: xenLae2    Primary Table: ncbiRefSeqPsl    Row Count: 61,188   Data last updated: 2020-04-01
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 706int(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 192int(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 2int(10) unsigned range Number of inserts in target
tBaseInsert 1356int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName XM_018226952.1varchar(255) values Query sequence name
qSize 898int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 898int(10) unsigned range Alignment end position in query
tName chr1Lvarchar(255) values Target sequence name
tSize 219802468int(10) unsigned range Target sequence size
tStart 260620int(10) unsigned range Alignment start position in target
tEnd 262874int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 63,208,627,longblob   Size of each block
qStarts 0,63,271,longblob   Start of each block in query.
tStarts 260620,261723,262247,longblob   Start of each block in target.

Connected Tables and Joining Fields
        xenLae2.ncbiRefSeq.name (via ncbiRefSeqPsl.qName)
      xenLae2.ncbiRefSeqCds.id (via ncbiRefSeqPsl.qName)
      xenLae2.ncbiRefSeqCurated.name (via ncbiRefSeqPsl.qName)
      xenLae2.ncbiRefSeqLink.id (via ncbiRefSeqPsl.qName)
      xenLae2.ncbiRefSeqPredicted.name (via ncbiRefSeqPsl.qName)
      xenLae2.seqNcbiRefSeq.acc (via ncbiRefSeqPsl.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73706019200021356+XM_018226952.18980898chr1L219802468260620262874363,208,627,0,63,271,260620,261723,262247,
5881470340001106+XR_001932207.11810181chr1L219802468425661425948242,139,0,42,425661,425809,
589116161102511038737+NM_001094629.1127321231chr1L2198024685322095721241163,72,31,117,213,8,1,82,152,189,250,2,65,137,168,285,513,521,558,640,792,981,532209,542406,542479,547429,549061,554813,554822,564262,566076,568062,571874,
936531024603132191039641-NM_001092812.1407304041chr1L2198024681289838233338822176,142,16,805,147,135,106,182,152,201,157,93,153,81,36,204,267,120,167,196,106,267,32,223,368,384,1189,1336,1471,1577,1873,2025,2226,2383,2476,2629,2710,2746,2950,3217,3337,3504,3700,3806,1289838,1290014,1290156,1290204,1341711,1356137,1378905,1383491,1405914,1409696,1414905,1415690,1547305,1593459,1825156,2103675, ...
5982682022000000+XM_018226969.1290202902chr1L2198024681709788171269012902,0,1709788,
7535340368000173516+XM_018226972.1390203902chr1L2198024682734688281210621926,1976,0,1926,2734688,2810130,
606108704800000-XM_018268147.1113501135chr1L2198024682828932283006711135,0,2828932,
606716018800000+XM_018226974.19040904chr1L219802468284514728460511904,0,2845147,
60717140161000512061-XM_018226987.1187501875chr1L219802468289550829094446434,697,174,227,236,107,0,434,1131,1305,1532,1768,2895508,2899561,2901295,2902628,2903480,2909337,
60718750161000611900-XM_018226982.1203602036chr1L219802468289550829094447434,161,697,174,227,236,107,0,434,595,1292,1466,1693,1929,2895508,2896589,2899561,2901295,2902628,2903480,2909337,

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