Schema for xenoRefSeqAli
  Database: droMoj1    Primary Table: xenoRefSeqAli    Row Count: 336,922   Data last updated: 2020-08-21
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 82int(10) unsigned range Number of bases that match that aren't repeats
misMatches 19int(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 20int(10) unsigned range Number of 'N' bases
qNumInsert 2int(10) unsigned range Number of inserts in query
qBaseInsert 206int(10) unsigned range Number of bases inserted in query
tNumInsert 2int(10) unsigned range Number of inserts in target
tBaseInsert 7418int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_199918varchar(255) values Query sequence name
qSize 1950int(10) unsigned range Query sequence size
qStart 1007int(10) unsigned range Alignment start position in query
qEnd 1334int(10) unsigned range Alignment end position in query
tName contig_0varchar(255) values Target sequence name
tSize 53787int(10) unsigned range Target sequence size
tStart 278int(10) unsigned range Alignment start position in target
tEnd 7817int(10) unsigned range Alignment end position in target
blockCount 3int(10) unsigned range Number of blocks in alignment
blockSizes 57,12,52,longblob   Size of each block
qStarts 1007,1242,1282,longblob   Start of each block in query.
tStarts 45970,49065,53457,longblob   Start of each block in target.

Connected Tables and Joining Fields
        droMoj1.all_mrna.qName (via xenoRefSeqAli.qName)
      droMoj1.xenoMrna.qName (via xenoRefSeqAli.qName)
      droMoj1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      droMoj1.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
5858219020220627418+-NM_199918195010071334contig_0537872787817357,12,52,1007,1242,1282,45970,49065,53457,
58591200012064225171+-NM_01266734085002675contig_05378730825590333,57,21,500,2597,2654,28197,52538,53458,
58530517800172276++NR_1599352578249804contig_183271333746333108,237,138,249,429,666,74,257,495,
58580190025123296++NM_145226471836523802contig_05378713774772324,21,54,3652,3684,3748,1377,1765,4718,
585775002213313689+-NM_009399502228393134contig_0537871181925590423,11,21,27,2839,2862,2898,3107,28197,28435,32868,41941,
58565170000239157+-NM_001180094288615241606contig_0537871370252941342,9,31,1524,1566,1575,846,2888,40054,
5851372500394931233+-NM_134296484437204831contig_0537875204953444478,24,16,44,3720,3900,4628,4787,343,612,1468,1694,
5851372500394931233+-NM_165364482837044815contig_0537875204953444478,24,16,44,3704,3884,4612,4771,343,612,1468,1694,
585158635500141220184093+-NM_13429648444583619contig_112295260362061,33,87,57,75,42,54,32,215,396,30,123,156,144,107,157,87,30,31,24,458,571,721,859,919,1069,1168,1255,1287,1648,2101,2215,2350,2506,2650,2757,2914,3088,3325,3595,6259,6383,6479,6677,6734,6893,7043,7133,7168,7577,8141,9550,9700,9923,10918,11097,11340,11587,11969,12269,
585158635500141220184093+-NM_16536448284423603contig_112295260362061,33,87,57,75,42,54,32,215,396,30,123,156,144,107,157,87,30,31,24,442,555,705,843,903,1053,1152,1239,1271,1632,2085,2199,2334,2490,2634,2741,2898,3072,3309,3579,6259,6383,6479,6677,6734,6893,7043,7133,7168,7577,8141,9550,9700,9923,10918,11097,11340,11587,11969,12269,

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