Schema for affyU34A
  Database: rn3    Primary Table: affyU34A    Row Count: 8,375   Data last updated: 2004-05-11
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 2400smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 1188int(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 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 8int(10) unsigned range Number of inserts in target
tBaseInsert 13723int(10) unsigned range Number of bases inserted in target
strand +char(2) values + or - for strand. First character query, second target (optional)
qName A01157cds_s_atvarchar(255) values Query sequence name
qSize 1188int(10) unsigned range Query sequence size
qStart 0int(10) unsigned range Alignment start position in query
qEnd 1188int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 268121971int(10) unsigned range Target sequence size
tStart 238005572int(10) unsigned range Alignment start position in target
tEnd 238020483int(10) unsigned range Alignment end position in target
blockCount 9int(10) unsigned range Number of blocks in alignment
blockSizes 102,118,199,110,137,147,72,...longblob   Size of each block
qStarts 0,102,220,419,529,666,813,8...longblob   Start of each block in query.
tStarts 238005572,238005812,2380069...longblob   Start of each block in target.

Connected Tables and Joining Fields
        hgFixed.gnfRatAtlas2All.name (via affyU34A.qName)
      hgFixed.gnfRatAtlas2AllRatio.name (via affyU34A.qName)
      hgFixed.gnfRatAtlas2Median.name (via affyU34A.qName)
      hgFixed.gnfRatAtlas2MedianRatio.name (via affyU34A.qName)
      rn3.gnfAtlas2.name (via affyU34A.qName)
      rn3.knownToU34A.value (via affyU34A.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
2400118800000813723+A01157cds_s_at118801188chr12681219712380055722380204839102,118,199,110,137,147,72,72,231,0,102,220,419,529,666,813,885,957,238005572,238005812,238006972,238008233,238010108,238014931,238016973,238017482,238020252,
148118860000725451-A03913cds_s_at119401194chr91136499437927557779302222838,84,87,101,199,198,228,259,0,38,122,209,310,509,707,935,79275577,79277485,79280328,79282433,79283730,79291536,79297417,79301963,
7875001090033610-A04674cds_s_at5122512chr195922352526532466265365864115,181,99,115,0,115,296,395,26532466,26534995,26536281,26536471,
7484383000013309-A07543cds_s_at4410441chr1411222068221378191213819412387,54,0,387,21378191,21381887,
1135853143000326040+A09811cds_s_at9003900chr911364994372113947721408844367,224,141,165,3,370,594,735,72113947,72137865,72138775,72140719,
23635592000012109-A16585cds_s_at5610561chr12681219712331647542331674242350,211,0,350,233164754,233167213,
1031134100000672208-A17753cds_s_at134101341chr118780038158504548585780977197,343,78,197,143,113,270,0,197,540,618,815,958,1071,58504548,58505829,58508568,58509747,58519244,58559238,58577827,
1561505700001184226-A30543cds_s_at151201512chr3170969371879209308800666812205,79,72,126,129,117,114,222,69,137,166,76,0,205,284,356,482,611,728,842,1064,1133,1270,1436,87920930,87929077,87931135,87944650,87946194,87948859,87949433,87959845,87962674,87968255,87972076,88006592,
1211285240000146870-A44407cds_at29821262982chr1187800381820860008209572615109,156,194,150,216,248,123,53,109,160,125,351,156,673,33,0,109,265,459,609,825,1073,1196,1249,1358,1518,1643,1994,2150,2823,82086000,82086220,82086471,82086755,82087022,82087679,82088032,82089067,82089448,82089645,82089982,82090234,82091263,82093689,82 ...
781270150115275028+AA108277_at1580143chr124664922658012966076466765,32,9,16,5,4,11,0,65,97,106,122,127,132,5801296,5802946,5802979,5802989,5803011,6076451,6076455,

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