Schema for xenoRefSeqAli
  Database: micMur1    Primary Table: xenoRefSeqAli    Row Count: 681,359   Data last updated: 2020-08-22
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 73smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 3613int(10) unsigned Number of bases that match that aren't repeats
misMatches 543int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 1int(10) unsigned Number of inserts in query
qBaseInsert 119int(10) unsigned Number of bases inserted in query
tNumInsert 21int(10) unsigned Number of inserts in target
tBaseInsert 194898int(10) unsigned Number of bases inserted in target
strand ++char(2) + or - for strand. First character query, second target (optional)
qName NM_001107939varchar(255) Query sequence name
qSize 4933int(10) unsigned Query sequence size
qStart 111int(10) unsigned Alignment start position in query
qEnd 4386int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 1949650int(10) unsigned Target sequence size
tStart 198887int(10) unsigned Alignment start position in target
tEnd 397941int(10) unsigned Alignment end position in target
blockCount 22int(10) unsigned Number of blocks in alignment
blockSizes 1068,146,294,194,500,4,127,...longblob Size of each block
qStarts 111,1179,1325,1619,1932,243...longblob Start of each block in query.
tStarts 198887,223078,227386,234900...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)
      micMur1.all_mrna.qName (via xenoRefSeqAli.qName)
      micMur1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      micMur1.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73361354300111921194898++NM_00110793949331114386scaffold_01949650198887397941221068,146,294,194,500,4,127,2,89,2,192,109,99,214,171,125,211,172,148,107,75,107,111,1179,1325,1619,1932,2432,2436,2563,2565,2654,2656,2848,2957,3056,3270,3441,3566,3777,3949,4097,4204,4279,198887,223078,227386,234900,248618,251109,280353,280515,285532,285868,316402,346380,347430,349902,358932,361408,369398,370309,37 ...
7347227250018458639212072++NM_0213621102776910802scaffold_01949650198887416406411068,146,294,194,503,128,2,89,2,192,109,141,214,171,182,211,172,148,107,75,107,92,181,130,30,19,14,14,19,27,42,13,171,11,14,96,2 ...769,1837,1983,2277,2590,3093,3221,3223,3312,3314,3506,3615,3756,3970,4141,4323,4534,4706,4854,4961,5036,5929,6022,6281,6411,6785 ...198887,223078,227386,234900,248618,280352,280515,285532,285868,316402,346380,347430,349902,358932,361408,369398,370309,378692,38 ...
58514952130021975233899++NR_13445830383553038scaffold_4012178811858329143928146,193,40,123,24,11,37,18,21,4,230,98,30,53,80,37,31,39,27,49,14,104,9,10,169,24,54,33,355,501,695,781,915,939,994,1383,1431,1453,1457,1703,1944,1976,2029,2119,2328,2374,2444,2471,2522,2554,2677,2700,2717,2923,2951, ...85832,87549,87742,87794,87940,87965,88029,88094,88144,88165,88177,88433,90521,90551,90605,90690,90727,90772,90840,90873,90926,90 ...
58515012000000+-NR_135541774514721634scaffold_512155792612231162,1472,5569,
58515012000000+-NR_135543741211391301scaffold_512155792612231162,1139,5569,
58515012000000+-NR_135544785314721634scaffold_512155792612231162,1472,5569,
998140023383830463+-NM_173450513523552805scaffold_019496503349741165549440,24,26,22,2355,2719,2757,2783,784101,999151,1404176,1614654,
7376100013043267511+-NM_001107641766665826972scaffold_01949650334978602575422,4,33,27,6582,6604,6608,6945,1347075,1347841,1404846,1614645,
5852773300125325++NR_134459827355690scaffold_40121788117233272667423,165,83,39,355,378,568,651,72332,72357,72544,72628,
588308430073566362++NM_0213621102784789185scaffold_01949650417031417744885,35,5,37,18,132,15,24,8478,8710,8746,8754,8848,8883,9087,9161,417031,417237,417274,417279,417375,417415,417627,417720,

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