Schema for all_mrna
  Database: panTro3    Primary Table: all_mrna    Row Count: 3,873   Data last updated: 2020-05-08
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 592smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1477int(10) unsigned range Number of bases that match that aren't repeats
misMatches 6int(10) unsigned range Number of bases that don't match
repMatches 253int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 3int(10) unsigned range Number of inserts in query
qBaseInsert 460int(10) unsigned range Number of bases inserted in query
tNumInsert 13int(10) unsigned range Number of inserts in target
tBaseInsert 32290int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName AK305466varchar(255) values Query sequence name
qSize 2220int(10) unsigned range Query sequence size
qStart 1int(10) unsigned range Alignment start position in query
qEnd 2197int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 228333871int(10) unsigned range Target sequence size
tStart 989518int(10) unsigned range Alignment start position in target
tEnd 1023544int(10) unsigned range Alignment end position in target
blockCount 14int(10) unsigned range Number of blocks in alignment
blockSizes 782,27,31,26,135,66,96,76,9...longblob   Size of each block
qStarts 23,805,879,910,936,1071,113...longblob   Start of each block in query.
tStarts 989518,990615,992596,992724...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)
      panTro3.all_est.qName (via all_mrna.qName)
      panTro3.mrnaOrientInfo.name (via all_mrna.qName)
      panTro3.refGene.name (via all_mrna.qName)
      panTro3.refSeqAli.qName (via all_mrna.qName)
      panTro3.xenoMrna.qName (via all_mrna.qName)
      panTro3.xenoRefGene.name (via all_mrna.qName)
      panTro3.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
59214776253034601332290-AK305466222012197chr1228333871989518102354414782,27,31,26,135,66,96,76,94,113,48,35,27,180,23,805,879,910,936,1071,1137,1233,1309,1403,1516,1564,2010,2039,989518,990615,992596,992724,994171,995483,995856,998802,1000078,1000598,1005027,1023268,1023336,1023364,
5921739600358129445-AK30602919921451948chr1228333871989524100071414297,8,105,375,171,149,31,26,135,66,96,76,94,116,44,341,349,455,840,1011,1207,1238,1264,1399,1465,1561,1637,1731,989524,989822,989831,989936,990321,990493,992596,992724,994171,995483,995856,998802,1000078,1000598,
593890000000+FZ42713789089chr122833387110887011088790189,0,1088701,
741176120250280518151-AK306358221501518chr1228333871116817611877657257,602,139,103,41,131,165,697,955,1636,1775,1878,1919,2050,1168176,1168433,1170380,1170596,1176839,1181684,1187600,
59413855790330113007+AF03816519174181917chr12283338711198009120248513209,191,89,165,9,75,118,79,25,17,59,76,357,418,627,818,907,1085,1095,1170,1288,1367,1392,1425,1484,1560,1198009,1198351,1198750,1198915,1199366,1199375,1200038,1200244,1200405,1200431,1201769,1201939,1202128,
594680100152544764-AK30595721162421448chr1228333871122330812287535109,163,90,85,234,668,777,940,1030,1640,1223308,1223503,1223751,1224230,1228519,
594681000152544764-AK30601821272471453chr1228333871122330812287535109,163,90,85,234,674,783,946,1036,1646,1223308,1223503,1223751,1224230,1228519,
594260380000124513-AK305526263152616chr122833387112440801251204131260,207,100,67,132,153,68,77,140,70,94,139,104,15,1275,1482,1582,1649,1781,1934,2002,2079,2219,2289,2383,2522,1244080,1246868,1247160,1247261,1247412,1248177,1248472,1248626,1249045,1249254,1249417,1250714,1251100,
594184310000134997-AY66528020131692013chr12283338711244966125180714374,207,168,132,78,68,77,140,70,94,139,104,122,71,0,374,581,749,881,959,1027,1104,1244,1314,1408,1547,1651,1773,1244966,1246868,1247160,1247412,1248252,1248472,1248626,1249045,1249254,1249417,1250714,1251100,1251410,1251736,
59414820530277043843-AK306494232222307chr1228333871126092212663005944,75,102,306,108,15,959,1784,1886,2212,1260922,1262085,1263499,1263705,1266192,

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