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Database: gorGor6 Primary Table: all_mrna Row Count: 429   Data last updated: 2019-12-05
Format description: Summary info about a patSpace alignment On download server: MariaDB table dump directory
field | example | SQL type | info | description |
bin | 620 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
matches | 187 | int(10) unsigned | range | Number of bases that match that aren't repeats |
misMatches | 0 | int(10) unsigned | range | Number of bases that don't match |
repMatches | 0 | int(10) unsigned | range | Number of bases that match but are part of repeats |
nCount | 0 | int(10) unsigned | range | Number of 'N' bases |
qNumInsert | 0 | int(10) unsigned | range | Number of inserts in query |
qBaseInsert | 0 | int(10) unsigned | range | Number of bases inserted in query |
tNumInsert | 2 | int(10) unsigned | range | Number of inserts in target |
tBaseInsert | 55 | int(10) unsigned | range | Number of bases inserted in target |
strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
qName | AY827149 | varchar(255) | values | Query sequence name |
qSize | 195 | int(10) unsigned | range | Query sequence size |
qStart | 0 | int(10) unsigned | range | Alignment start position in query |
qEnd | 187 | int(10) unsigned | range | Alignment end position in query |
tName | chr1 | varchar(255) | values | Target sequence name |
tSize | 219763114 | int(10) unsigned | range | Target sequence size |
tStart | 4627197 | int(10) unsigned | range | Alignment start position in target |
tEnd | 4627439 | int(10) unsigned | range | Alignment end position in target |
blockCount | 3 | int(10) unsigned | range | Number of blocks in alignment |
blockSizes | 4,78,105, | longblob | | Size of each block |
qStarts | 0,4,82, | longblob | | Start of each block in query. |
tStarts | 4627197,4627202,4627334, | longblob | | Start of each block in target. |
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Connected Tables and Joining Fields
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Sample Rows
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bin | matches | misMatches | repMatches | nCount | qNumInsert | qBaseInsert | tNumInsert | tBaseInsert | strand | qName | qSize | qStart | qEnd | tName | tSize | tStart | tEnd | blockCount | blockSizes | qStarts | tStarts |
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620 | 187 | 0 | 0 | 0 | 0 | 0 | 2 | 55 | + | AY827149 | 195 | 0 | 187 | chr1 | 219763114 | 4627197 | 4627439 | 3 | 4,78,105, | 0,4,82, | 4627197,4627202,4627334, |
620 | 241 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | + | AY827150 | 249 | 0 | 241 | chr1 | 219763114 | 4627197 | 4627439 | 2 | 4,237, | 0,4, | 4627197,4627202, |
630 | 110 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | FV526200 | 110 | 0 | 110 | chr1 | 219763114 | 5946179 | 5946289 | 1 | 110, | 0, | 5946179, |
737 | 74 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | MS881502 | 74 | 0 | 74 | chr1 | 219763114 | 19987929 | 19988003 | 1 | 74, | 0, | 19987929, |
746 | 1309 | 30 | 0 | 0 | 1 | 11 | 10 | 54921 | + | L37052 | 1350 | 0 | 1350 | chr1 | 219763114 | 21127963 | 21184223 | 11 | 148,187,151,87,50,167,138,134,80,74,123, | 0,148,335,486,584,634,801,939,1073,1153,1227, | 21127963,21138783,21144912,21155233,21155331,21155806,21157607,21160878,21171256,21176111,21184100, |
746 | 1344 | 6 | 0 | 0 | 0 | 0 | 9 | 54910 | + | L37053 | 1350 | 0 | 1350 | chr1 | 219763114 | 21127963 | 21184223 | 10 | 148,187,151,148,167,138,134,80,74,123, | 0,148,335,486,634,801,939,1073,1153,1227, | 21127963,21138783,21144912,21155233,21155806,21157607,21160878,21171256,21176111,21184100, |
746 | 703 | 33 | 0 | 0 | 0 | 0 | 5 | 20211 | + | AF201369 | 736 | 0 | 736 | chr1 | 219763114 | 21155233 | 21176180 | 6 | 148,167,140,132,80,69, | 0,148,315,455,587,667, | 21155233,21155806,21157607,21160880,21171256,21176111, |
850 | 321 | 0 | 0 | 0 | 0 | 0 | 1 | 5778 | + | DQ885661 | 321 | 0 | 321 | chr1 | 219763114 | 34808861 | 34814960 | 2 | 216,105, | 0,216, | 34808861,34814855, |
966 | 2071 | 2 | 0 | 0 | 0 | 0 | 11 | 21750 | + | EF692498 | 2073 | 0 | 2073 | chr1 | 219763114 | 49964852 | 49988675 | 12 | 201,192,124,134,142,197,184,174,149,178,182,216, | 0,201,393,517,651,793,990,1174,1348,1497,1675,1857, | 49964852,49968857,49971537,49977399,49977773,49981119,49982447,49983155,49983618,49984578,49986468,49988459, |
1409 | 50 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | + | MF190708 | 50 | 0 | 50 | chr1 | 219763114 | 108093403 | 108093453 | 1 | 50, | 0, | 108093403, |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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