Schema for xenoRefSeqAli
  Database: gasAcu1    Primary Table: xenoRefSeqAli    Row Count: 296,300   Data last updated: 2020-08-19
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 647int(10) unsigned range Number of bases that match that aren't repeats
misMatches 206int(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 3int(10) unsigned range Number of inserts in query
qBaseInsert 737int(10) unsigned range Number of bases inserted in query
tNumInsert 5int(10) unsigned range Number of inserts in target
tBaseInsert 5048int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001123552varchar(255) values Query sequence name
qSize 2496int(10) unsigned range Query sequence size
qStart 559int(10) unsigned range Alignment start position in query
qEnd 2149int(10) unsigned range Alignment end position in query
tName chrIvarchar(255) values Target sequence name
tSize 28185914int(10) unsigned range Target sequence size
tStart 2106int(10) unsigned range Alignment start position in target
tEnd 8007int(10) unsigned range Alignment end position in target
blockCount 6int(10) unsigned range Number of blocks in alignment
blockSizes 177,81,92,52,143,308,longblob   Size of each block
qStarts 559,760,1553,1645,1697,1841,longblob   Start of each block in query.
tStarts 28177907,28178775,28181630,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        gasAcu1.all_est.qName (via xenoRefSeqAli.qName)
      gasAcu1.all_mrna.qName (via xenoRefSeqAli.qName)
      gasAcu1.refGene.name (via xenoRefSeqAli.qName)
      gasAcu1.refSeqAli.qName (via xenoRefSeqAli.qName)
      gasAcu1.xenoMrna.qName (via xenoRefSeqAli.qName)
      gasAcu1.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
58564720600373755048+-NM_00112355224965592149chrI28185914210680076177,81,92,52,143,308,559,760,1553,1645,1697,1841,28177907,28178775,28181630,28181723,28182216,28183500,
58520799001611146+-NM_001032960182212131525chrI28185914224736992144,162,1213,1363,28182215,28183505,
585204102001611146+-NM_012968186213021614chrI28185914224736992144,162,1302,1452,28182215,28183505,
5851653700161784+-NM_0010454591081276484chrI2818591419110200962109,93,276,391,28165818,28166711,
585112827700152707+-NM_00110905630711011511chrI2818591436879389913145,963,297,101,246,1214,28146923,28147769,28148738,
5851092303001152717+-NM_0012058561476661476chrI2818591436879389913145,953,297,66,211,1179,28146923,28147769,28148738,
5851107288001152717+-NM_17771830801011511chrI2818591436879389913145,953,297,101,246,1214,28146923,28147769,28148738,
6481363593001112002011561+-NM_0153131032610294185chrI281859148327094834061121100,50,60,60,102,27,108,99,98,133,117,72,100,146,75,121,119,81,45,166,77,1029,1129,1179,1239,1503,1878,1920,2034,2181,2279,2451,2586,3111,3211,3369,3444,3565,3705,3786,3942,4108,19845303,19846443,19846736,19846890,19848500,19850371,19851434,19851648,19852504,19852748,19853564,19853797,19854685,19855036,19 ...
585165870018411227+-NM_0010024461530354690chrI2818591465737672162159,93,354,597,28118698,28120084,
5855351880038472973+-NM_00100576713233501157chrI2818591469864735608138,46,95,144,102,96,3,99,350,494,540,644,857,959,1055,1058,28112354,28112675,28112796,28113463,28115020,28115208,28115393,28115951,

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