Schema for all_mrna
  Database: calJac3    Primary Table: all_mrna    Row Count: 1,650   Data last updated: 2020-05-05
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 1133smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 651int(10) unsigned range Number of bases that match that aren't repeats
misMatches 3int(10) unsigned range Number of bases that don't match
repMatches 26int(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 3int(10) unsigned range Number of inserts in target
tBaseInsert 6248int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName EF215086varchar(255) values Query sequence name
qSize 680int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 680int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 210400635int(10) unsigned range Target sequence size
tStart 71829549int(10) unsigned range Alignment start position in target
tEnd 71836477int(10) unsigned range Alignment end position in target
blockCount 4int(10) unsigned range Number of blocks in alignment
blockSizes 561,48,51,20,longblob   Size of each block
qStarts 0,561,609,660,longblob   Start of each block in query.
tStarts 71829549,71831735,71832956,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        calJac3.all_est.qName (via all_mrna.qName)
      calJac3.mrnaOrientInfo.name (via all_mrna.qName)
      calJac3.refGene.name (via all_mrna.qName)
      calJac3.refSeqAli.qName (via all_mrna.qName)
      calJac3.xenoMrna.qName (via all_mrna.qName)
      calJac3.xenoRefGene.name (via all_mrna.qName)
      calJac3.xenoRefSeqAli.qName (via all_mrna.qName)
      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)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
113365132600036248-EF2150866800680chr121040063571829549718364774561,48,51,20,0,561,609,660,71829549,71831735,71832956,71836457,
115066210011774148-EF2148426800680chr12104006357417333774178148819,13,8,307,83,71,127,35,0,19,49,57,364,447,518,645,74173337,74173357,74173386,74173395,74174092,74174913,74176197,74178113,
1381680000001845+EF2151746800680chr1210400635104360212104361737286,594,0,86,104360212,104361143,
140291730000511602+EF44480795737957chr1210400635107193107107205629663,342,288,108,60,59,37,100,442,730,838,898,107193107,107194081,107200500,107203143,107204413,107205570,
140355220011443975+EF444808657102657chr1210400635107255403107299932673,270,135,7,42,27,102,175,445,580,588,630,107255403,107276304,107284508,107290693,107290700,107299905,
15245710000000-AB5712445710571chr12104006351231328151231333861571,0,123132815,
16116800000011196+EF2153896800680chr1210400635134489882134491758255,625,0,55,134489882,134491133,
1625552000112841583+EF2151116800680chr1210400635136437155136439290526,5,44,84,393,0,26,31,203,287,136437155,136437182,136437188,136437940,136438897,
162857401060003773-EF2149246800680chr1210400635136810653136812106415,469,71,125,0,15,484,555,136810653,136810669,136811296,136811981,
162857421040003773-EF2153116800680chr1210400635136810653136812106415,469,71,125,0,15,484,555,136810653,136810669,136811296,136811981,

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