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Database: rn6 Primary Table: all_est Row Count: 1,270,134 Data last updated: 2016-07-05
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | description |
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| bin | 595 | smallint(5) unsigned | Indexing field to speed chromosome range queries. |
| matches | 385 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 5 | int(10) unsigned | Number of bases that don't match |
| repMatches | 0 | int(10) unsigned | Number of bases that match but are part of repeats |
| nCount | 0 | int(10) unsigned | Number of 'N' bases |
| qNumInsert | 1 | int(10) unsigned | Number of inserts in query |
| qBaseInsert | 1 | int(10) unsigned | Number of bases inserted in query |
| tNumInsert | 1 | int(10) unsigned | Number of inserts in target |
| tBaseInsert | 1 | int(10) unsigned | Number of bases inserted in target |
| strand | + | char(2) | + or - for strand. First character query, second target (optional) |
| qName | AA964125 | varchar(255) | Query sequence name |
| qSize | 391 | int(10) unsigned | Query sequence size |
| qStart | 0 | int(10) unsigned | Alignment start position in query |
| qEnd | 391 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 282763074 | int(10) unsigned | Target sequence size |
| tStart | 1388970 | int(10) unsigned | Alignment start position in target |
| tEnd | 1389361 | int(10) unsigned | Alignment end position in target |
| blockCount | 3 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 134,234,22, | longblob | Size of each block |
| qStarts | 0,134,369, | longblob | Start of each block in query. |
| tStarts | 1388970,1389105,1389339, | 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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| 595 | 385 | 5 | 0 | 0 | 1 | 1 | 1 | 1 | + | AA964125 | 391 | 0 | 391 | chr1 | 282763074 | 1388970 | 1389361 | 3 | 134,234,22, | 0,134,369, | 1388970,1389105,1389339, |
| 597 | 494 | 0 | 0 | 0 | 0 | 0 | 1 | 440 | + | AA874926 | 494 | 0 | 494 | chr1 | 282763074 | 1683129 | 1684063 | 2 | 9,485, | 0,9, | 1683129,1683578, |
| 597 | 376 | 1 | 0 | 0 | 0 | 0 | 1 | 2 | - | AA859893 | 387 | 0 | 377 | chr1 | 282763074 | 1683145 | 1683524 | 2 | 371,6, | 10,381, | 1683145,1683518, |
| 597 | 333 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA850307 | 334 | 0 | 334 | chr1 | 282763074 | 1683171 | 1683505 | 1 | 334, | 0, | 1683171, |
| 597 | 334 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA851694 | 337 | 0 | 337 | chr1 | 282763074 | 1684390 | 1684727 | 1 | 337, | 0, | 1684390, |
| 598 | 387 | 1 | 0 | 1 | 5 | 5 | 0 | 0 | + | AA686047 | 394 | 0 | 394 | chr1 | 282763074 | 1730411 | 1730800 | 6 | 303,42,10,25,4,5, | 0,304,347,358,384,389, | 1730411,1730714,1730756,1730766,1730791,1730795, |
| 598 | 336 | 0 | 0 | 0 | 0 | 0 | 1 | 69 | + | AA685477 | 341 | 5 | 341 | chr1 | 282763074 | 1730507 | 1730912 | 2 | 331,5, | 5,336, | 1730507,1730907, |
| 598 | 582 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA943665 | 582 | 0 | 582 | chr1 | 282763074 | 1730627 | 1731209 | 1 | 582, | 0, | 1730627, |
| 598 | 241 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | + | AA685245 | 242 | 0 | 242 | chr1 | 282763074 | 1730657 | 1730898 | 2 | 192,49, | 0,193, | 1730657,1730849, |
| 598 | 254 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | - | AA685600 | 255 | 0 | 255 | chr1 | 282763074 | 1730954 | 1731209 | 1 | 255, | 0, | 1730954, |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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US Server