Schema for xenoRefSeqAli
  Database: panPan3    Primary Table: xenoRefSeqAli    Row Count: 243,709   Data last updated: 2020-06-16
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 2193int(10) unsigned range Number of bases that match that aren't repeats
misMatches 7int(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 0int(10) unsigned range Number of inserts in query
qBaseInsert 0int(10) unsigned range Number of bases inserted in query
tNumInsert 6int(10) unsigned range Number of inserts in target
tBaseInsert 17701int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001302433varchar(255) values Query sequence name
qSize 2215int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 2200int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 224621958int(10) unsigned range Target sequence size
tStart 8755int(10) unsigned range Alignment start position in target
tEnd 28656int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 165,131,41,103,139,81,1540,longblob   Size of each block
qStarts 0,165,296,337,440,579,660,longblob   Start of each block in query.
tStarts 224593302,224599129,2246036...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)
      panPan3.all_mrna.qName (via xenoRefSeqAli.qName)
      panPan3.refGene.name (via xenoRefSeqAli.qName)
      panPan3.refSeqAli.qName (via xenoRefSeqAli.qName)
      panPan3.xenoRefFlat.name (via xenoRefSeqAli.qName)
      panPan3.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585219370000617701+-NM_001302433221502200chr12246219588755286567165,131,41,103,139,81,1540,0,165,296,337,440,579,660,224593302,224599129,224603697,224609841,224610021,224611026,224611663,
58522031800339617701+-NM_058167226002260chr12246219588755286771035,151,131,41,103,139,81,287,341,912,0,38,189,320,361,464,603,684,986,1348,224593281,224593316,224599129,224603697,224609841,224610021,224611026,224611663,224611950,224612291,
58522071900482617696+-NM_194315230802308chr12246219588755286771035,151,134,43,103,139,81,287,341,912,0,38,189,366,409,512,651,732,1034,1396,224593281,224593316,224599129,224603695,224609841,224610021,224611026,224611663,224611950,224612291,
58520751500339517832+-NM_194457212902129chr1224621958875528677935,151,41,103,139,81,287,341,912,0,38,189,230,333,472,553,855,1217,224593281,224593316,224603697,224609841,224610021,224611026,224611663,224611950,224612291,
58523282200339617572+-NM_194458239602389chr12246219588755286771035,151,260,41,103,139,81,287,341,912,0,38,189,449,490,593,732,813,1115,1477,224593281,224593316,224599129,224603697,224609841,224610021,224611026,224611663,224611950,224612291,
5858691520063901117775+-NM_0010076551636411452chr12246219589845286411239,48,17,60,133,41,103,139,81,300,45,15,41,99,168,388,496,629,670,773,912,993,1389,1437,224593317,224593377,224593458,224595929,224599127,224603697,224609841,224610021,224611026,224611663,224612042,224612098,
585763130002137715250+-NR_0028891189701100chr1224621958987126014845,133,41,103,139,81,300,51,70,163,296,337,440,579,660,1049,224595944,224599127,224603697,224609841,224610021,224611026,224611663,224612036,
585773135002133715250+-NM_00128431232841551196chr1224621958987126029860,133,41,103,139,81,300,51,155,263,396,437,540,679,760,1145,224595929,224599127,224603697,224609841,224610021,224611026,224611663,224612036,
585859150004210917749+-NM_0010391573383761295chr12246219589871286291027,74,60,133,41,103,139,81,300,51,76,122,254,362,495,536,639,778,859,1244,224593329,224593377,224595929,224599127,224603697,224609841,224610021,224611026,224611663,224612036,
585833129003231917796+-NM_0010391583357761269chr12246219589871286291027,70,17,133,41,103,139,81,300,51,76,122,192,336,469,510,613,752,833,1218,224593329,224593377,224593458,224599127,224603697,224609841,224610021,224611026,224611663,224612036,

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