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Database: canFam2 Primary Table: est (chr1_est) Row Count: 23,553 Data last updated: 2016-06-12
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | info | description |
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| bin | 1466 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 390 | 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 | 2 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 3 | int(10) unsigned | range | Number of bases inserted in query |
| tNumInsert | 5 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 7617 | int(10) unsigned | range | Number of bases inserted in target |
| strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | AB042265 | varchar(255) | values | Query sequence name |
| qSize | 393 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 393 | int(10) unsigned | range | Alignment end position in query |
| tName | chr1 | varchar(255) | values | Target sequence name |
| tSize | 125616256 | int(10) unsigned | range | Target sequence size |
| tStart | 115543488 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 115551495 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 7 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 14,29,54,78,148,52,15, | longblob | | Size of each block |
| qStarts | 0,16,46,100,178,326,378, | longblob | | Start of each block in query. |
| tStarts | 115543488,115543503,1155435... | 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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| 1466 | 390 | 0 | 0 | 0 | 2 | 3 | 5 | 7617 | + | AB042265 | 393 | 0 | 393 | chr1 | 125616256 | 115543488 | 115551495 | 7 | 14,29,54,78,148,52,15, | 0,16,46,100,178,326,378, | 115543488,115543503,115543532,115545242,115545501,115551427,115551480, |
| 720 | 553 | 2 | 9 | 0 | 0 | 0 | 0 | 0 | + | AJ536899 | 568 | 4 | 568 | chr1 | 125616256 | 17799278 | 17799842 | 1 | 564, | 4, | 17799278, |
| 720 | 467 | 4 | 45 | 0 | 0 | 0 | 0 | 0 | - | AJ536900 | 535 | 19 | 535 | chr1 | 125616256 | 17800013 | 17800529 | 1 | 516, | 0, | 17800013, |
| 737 | 201 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ536893 | 275 | 10 | 213 | chr1 | 125616256 | 20029068 | 20029271 | 1 | 203, | 10, | 20029068, |
| 769 | 483 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ537377 | 483 | 0 | 483 | chr1 | 125616256 | 24154949 | 24155432 | 1 | 483, | 0, | 24154949, |
| 819 | 571 | 1 | 0 | 0 | 1 | 1 | 1 | 2 | - | AJ536901 | 598 | 0 | 573 | chr1 | 125616256 | 30743380 | 30743954 | 2 | 426,146, | 25,452, | 30743380,30743808, |
| 878 | 704 | 3 | 0 | 0 | 0 | 0 | 3 | 575 | - | AJ536902 | 729 | 20 | 727 | chr1 | 125616256 | 38415195 | 38416477 | 4 | 71,53,201,382, | 2,73,126,327, | 38415195,38415544,38415765,38416095, |
| 884 | 473 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ536896 | 477 | 0 | 477 | chr1 | 125616256 | 39267273 | 39267750 | 1 | 477, | 0, | 39267273, |
| 1072 | 478 | 2 | 0 | 0 | 0 | 0 | 1 | 10079 | - | AJ536897 | 483 | 0 | 480 | chr1 | 125616256 | 63906902 | 63917461 | 2 | 110,370, | 3,113, | 63906902,63917091, |
| 1186 | 412 | 0 | 29 | 0 | 0 | 0 | 1 | 2 | - | AJ536904 | 461 | 1 | 442 | chr1 | 125616256 | 78866169 | 78866612 | 2 | 335,106, | 19,354, | 78866169,78866506, |
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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