Schema for all_mrna
  Database: susScr2    Primary Table: all_mrna    Row Count: 41,326   Data last updated: 2020-09-02
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 587smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 585int(10) unsigned range Number of bases that match that aren't repeats
misMatches 9int(10) unsigned range Number of bases that don't match
repMatches 724int(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 0int(10) unsigned range Number of inserts in target
tBaseInsert 0int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName AK395166varchar(255) values Query sequence name
qSize 1342int(10) unsigned range Query sequence size
qStart 1int(10) unsigned range Alignment start position in query
qEnd 1319int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 295529705int(10) unsigned range Target sequence size
tStart 365406int(10) unsigned range Alignment start position in target
tEnd 366724int(10) unsigned range Alignment end position in target
blockCount 1int(10) unsigned range Number of blocks in alignment
blockSizes 1318,longblob   Size of each block
qStarts 1,longblob   Start of each block in query.
tStarts 365406,longblob   Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gbCdnaInfo.acc (via all_mrna.qName)
      hgFixed.gbMiscDiff.acc (via all_mrna.qName)
      hgFixed.gbSeq.acc (via all_mrna.qName)
      hgFixed.gbWarn.acc (via all_mrna.qName)
      hgFixed.imageClone.acc (via all_mrna.qName)
      susScr2.all_est.qName (via all_mrna.qName)
      susScr2.mrnaOrientInfo.name (via all_mrna.qName)
      susScr2.xenoMrna.qName (via all_mrna.qName)
      susScr2.xenoRefGene.name (via all_mrna.qName)
      susScr2.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
587585972400000+AK395166134211319chr129552970536540636672411318,1,365406,
5871501000001015207+AK346362153401501chr12955297053731063898141199,131,78,134,150,110,154,156,109,189,191,0,99,230,308,442,592,702,856,1012,1121,1310,373106,376467,377202,378293,378516,379163,380799,383583,387983,388360,389623,
5871499000001015201+AK396242151401499chr12955297053731163898161189,131,84,134,150,110,154,156,109,189,193,0,89,220,304,438,588,698,852,1008,1117,1306,373116,376467,377196,378293,378516,379163,380799,383583,387983,388360,389623,
587125010000811341+AK347679126801251chr1295529705377217389809963,134,150,110,154,156,109,189,186,0,63,197,347,457,611,767,876,1065,377217,378293,378516,379163,380799,383583,387983,388360,389623,
5872448101112237-AK392154246802451chr129552970538882039150741094,115,1210,31,17,1112,1227,2437,388820,389914,390030,391476,
5872450600001236-AK236266247202456chr129552970538882339151522417,39,16,2433,388823,391476,
5892450600001236+AK236266247202456chr1295529705628583631275239,2417,0,39,628583,628858,
5892448100112237+AK392154246802450chr1295529705628591631277431,1207,116,1095,0,31,1238,1355,628591,628858,630066,630182,
5891499000001015396-AK396242151401499chr129552970563028264717711193,189,109,156,154,110,150,134,84,131,89,15,208,397,506,662,816,926,1076,1210,1294,1425,630282,631549,632007,636364,639339,641019,641626,641865,643012,643695,647088,
5891501000001015402-AK346362153401501chr129552970563028464718711191,189,109,156,154,110,150,134,78,131,99,33,224,413,522,678,832,942,1092,1226,1304,1435,630284,631549,632007,636364,639339,641019,641626,641865,643012,643695,647088,

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