Schema for all_mrna
  Database: panTro5    Primary Table: all_mrna    Row Count: 4,292   Data last updated: 2020-08-22
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 586smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1515int(10) unsigned range Number of bases that match that aren't repeats
misMatches 4int(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 1int(10) unsigned range Number of inserts in query
qBaseInsert 1int(10) unsigned range Number of bases inserted in query
tNumInsert 8int(10) unsigned range Number of inserts in target
tBaseInsert 4318int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName AK306029varchar(255) values Query sequence name
qSize 1992int(10) unsigned range Query sequence size
qStart 428int(10) unsigned range Alignment start position in query
qEnd 1948int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 228573443int(10) unsigned range Target sequence size
tStart 194087int(10) unsigned range Alignment start position in target
tEnd 199924int(10) unsigned range Alignment end position in target
blockCount 10int(10) unsigned range Number of blocks in alignment
blockSizes 99,66,135,26,31,196,552,109...longblob   Size of each block
qStarts 428,527,593,728,754,785,981...longblob   Start of each block in query.
tStarts 194087,194493,195684,197240...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)
      panTro5.all_est.qName (via all_mrna.qName)
      panTro5.mrnaOrientInfo.name (via all_mrna.qName)
      panTro5.refGene.name (via all_mrna.qName)
      panTro5.refSeqAli.qName (via all_mrna.qName)
      panTro5.xenoMrna.qName (via all_mrna.qName)
      panTro5.xenoRefGene.name (via all_mrna.qName)
      panTro5.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
58615154001184318+AK30602919924281948chr12285734431940871999241099,66,135,26,31,196,552,109,8,297,428,527,593,728,754,785,981,1534,1643,1651,194087,194493,195684,197240,197363,198759,198956,199508,199618,199627,
58612163000064630+AK30546622209842203chr1228573443194087199936799,66,135,26,31,74,788,984,1083,1149,1284,1310,1341,1415,194087,194493,195684,197240,197363,198759,199148,
587890000000+FZ42713789089chr1228573443355943356032189,0,355943,
587220000000+FZ42649322022chr1228573443355995356017122,0,355995,
588219550000617836-AK306358221502200chr122857344343796345799971540,81,139,103,41,131,165,15,1555,1636,1775,1878,1919,2050,437963,440059,441011,441227,447470,451918,457834,
588191520000124646+AF038165191701917chr12285734434684324749951366,353,208,191,89,164,99,118,79,58,59,76,357,0,66,419,627,818,907,1071,1170,1288,1367,1425,1484,1560,468432,470915,471758,472099,472498,472663,472929,473656,473862,474022,474279,474449,474638,
5882101102001611631-AK305957211602104chr122857344349615550989017322,130,143,62,108,163,90,84,190,65,139,35,99,229,74,98,73,12,334,464,607,669,777,940,1030,1114,1304,1369,1508,1543,1642,1871,1945,2043,496155,496570,496773,496987,497140,497334,497582,498061,498285,498876,499465,500045,500161,503986,505177,505717,509817,
5882105202001611631-AK306018212702109chr122857344349615550989517322,130,143,62,108,163,90,84,190,65,139,35,99,229,74,98,78,18,340,470,613,675,783,946,1036,1120,1310,1375,1514,1549,1648,1877,1951,2049,496155,496570,496773,496987,497140,497334,497582,498061,498285,498876,499465,500045,500161,503986,505177,505717,509817,
73260290000124513-AK305526263152616chr1228573443520539527663131260,207,100,67,132,153,68,77,140,70,94,139,104,15,1275,1482,1582,1649,1781,1934,2002,2079,2219,2289,2383,2522,520539,523327,523619,523720,523871,524636,524931,525085,525504,525713,525876,527173,527559,
732012100001411020-AY665280201302013chr122857344352142553445815374,207,168,132,78,68,77,140,70,94,139,104,122,70,170,0,374,581,749,881,959,1027,1104,1244,1314,1408,1547,1651,1773,1843,521425,523327,523619,523871,524711,524931,525085,525504,525713,525876,527173,527559,527869,528195,534288,

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