Schema for all_mrna
  Database: xenTro10    Primary Table: all_mrna    Row Count: 22,794   Data last updated: 2021-03-24
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 73smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 2798int(10) unsigned range Number of bases that match that aren't repeats
misMatches 1int(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 4int(10) unsigned range Number of inserts in target
tBaseInsert 61529int(10) unsigned range Number of bases inserted in target
strand -char(2) values + or - for strand. First character query, second target (optional)
qName BC167718varchar(255) values Query sequence name
qSize 2915int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 2799int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 217471166int(10) unsigned range Target sequence size
tStart 130007int(10) unsigned range Alignment start position in target
tEnd 194335int(10) unsigned range Alignment end position in target
blockCount 5int(10) unsigned range Number of blocks in alignment
blockSizes 2158,167,103,297,74,longblob   Size of each block
qStarts 116,2274,2441,2544,2841,longblob   Start of each block in query.
tStarts 130007,185466,187520,188121...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)
      xenTro10.all_est.qName (via all_mrna.qName)
      xenTro10.mrnaOrientInfo.name (via all_mrna.qName)
      xenTro10.refGene.name (via all_mrna.qName)
      xenTro10.refSeqAli.qName (via all_mrna.qName)
      xenTro10.xenoRefGene.name (via all_mrna.qName)
      xenTro10.xenoRefSeqAli.qName (via all_mrna.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
73279810000461529-BC167718291502799chr121747116613000719433552158,167,103,297,74,116,2274,2441,2544,2841,130007,185466,187520,188121,194261,
5867190000046167-BC1355758420719chr12174711662008652077515200,124,147,231,17,123,323,447,594,825,200865,201382,203466,205059,207734,
5866940000033723-CT0306137040694chr12174711662008672052844198,124,147,225,10,208,332,479,200867,201382,203466,205059,
5867290000046167-BC15503977810739chr12174711662008672077635198,124,147,231,29,39,237,361,508,739,200867,201382,203466,205059,207734,
5866110000033723-MG13624364618629chr12174711662009322052664133,124,147,207,17,150,274,421,200932,201382,203466,205059,
5862834130021041021999-BC1677212978102961chr121747116621943924428512888,155,370,165,207,142,139,144,169,186,250,32,17,954,1164,1534,1699,1906,2048,2187,2331,2500,2686,2936,219439,220331,220486,221263,225223,226029,228360,230401,232272,237228,243195,244253,
5872096400001110266-CU024980213002100chr121747116635033936270512491,89,128,199,67,74,73,188,151,138,486,16,30,521,610,738,937,1004,1078,1151,1339,1490,1628,2114,350339,350913,351179,351651,352900,354154,354375,354553,355235,356047,360402,362689,
587177290011108465-BC157245179901782chr121747116635062436087012206,89,128,199,67,74,73,188,151,138,130,338,17,223,312,440,639,706,780,853,1041,1192,1330,1461,350624,350913,351179,351651,352900,354154,354375,354553,355235,356047,360402,360532,
587138700000108465-BC170999138701387chr121747116635068136053311149,89,128,199,67,74,73,188,151,138,131,0,149,238,366,565,632,706,779,967,1118,1256,350681,350913,351179,351651,352900,354154,354375,354553,355235,356047,360402,
587138500000108465-BC170997138501385chr121747116635068336053311147,89,128,199,67,74,73,188,151,138,131,0,147,236,364,563,630,704,777,965,1116,1254,350683,350913,351179,351651,352900,354154,354375,354553,355235,356047,360402,

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