Schema for all_mrna
  Database: anoCar2    Primary Table: all_mrna    Row Count: 230   Data last updated: 2019-05-17
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 848smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1130int(10) unsigned range Number of bases that match that aren't repeats
misMatches 0int(10) unsigned range Number of bases that don't match
repMatches 1int(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 57022int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName AM503582varchar(255) values Query sequence name
qSize 1131int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1131int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 263920458int(10) unsigned range Target sequence size
tStart 34481661int(10) unsigned range Alignment start position in target
tEnd 34539814int(10) unsigned range Alignment end position in target
blockCount 7int(10) unsigned range Number of blocks in alignment
blockSizes 131,93,87,145,113,93,469,longblob   Size of each block
qStarts 0,131,224,311,456,569,662,longblob   Start of each block in query.
tStarts 34481661,34522203,34527681,...longblob   Start of each block in target.

Connected Tables and Joining Fields
        anoCar2.all_est.qName (via all_mrna.qName)
      anoCar2.mrnaOrientInfo.name (via all_mrna.qName)
      anoCar2.xenoMrna.qName (via all_mrna.qName)
      anoCar2.xenoRefGene.name (via all_mrna.qName)
      anoCar2.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
848113001000657022+AM503582113101131chr126392045834481661345398147131,93,87,145,113,93,469,0,131,224,311,456,569,662,34481661,34522203,34527681,34528595,34533540,34538468,34539345,
9144556000045956-GQ4639594621462chr12639204584318659343193010595,126,69,89,82,0,95,221,290,379,43186593,43188653,43189139,43191384,43192928,
9143884000036025-GQ4639603931393chr12639204584318659343193010495,126,89,82,0,95,221,310,43186593,43188653,43191384,43192928,
12961810000000-AM50357810150181chr126392045893223451932236321181,834,93223451,
115544114030803481224477-GU198361480704807chr219961989574749250747784861625,19,82,363,65,556,2794,39,51,42,351,42,45,73,124,88,0,25,44,126,490,556,1158,3952,3991,4042,4084,4435,4477,4522,4595,4719,74749250,74749276,74749296,74749379,74749742,74749807,74750363,74754149,74755449,74757691,74766249,74767921,74769831,74770425,74 ...
1156449213300037592-GU9446745931585chr219961989574917064749252404196,271,70,47,8,204,475,545,74917064,74919189,74922329,74925193,
1315161704200088747+EU755366165901659chr219961989595789076957994829471,209,61,96,165,126,221,32,278,0,471,680,741,837,1002,1128,1349,1381,95789076,95791322,95792098,95793716,95795871,95796802,95797327,95799050,95799204,
13161644123000811805+EU755367166801668chr219961989595825622958390959480,209,61,96,165,126,221,32,278,0,480,689,750,846,1011,1137,1358,1390,95825622,95829486,95832077,95832539,95833832,95835951,95837021,95838668,95838817,
136567712200067304+FJ8535997020700chr2199619895102295322102303326766,32,114,94,90,120,184,0,66,98,212,306,396,516,102295322,102297340,102298550,102299524,102302648,102302886,102303142,
6221814123000213805-GQ489208183801838chr3204416410493089949465423835,790,213,0,835,1625,4930899,4933351,4946329,

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