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Database: rn4 Primary Table: est (chr1_est) Row Count: 136,547 Data last updated: 2016-05-26
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 | 595 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 316 | int(10) unsigned | range | Number of bases that match that aren't repeats |
| misMatches | 5 | int(10) unsigned | range | Number of bases that don't match |
| repMatches | 69 | 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 | 1 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 1 | int(10) unsigned | range | Number of bases inserted in query |
| tNumInsert | 2 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 2 | int(10) unsigned | range | Number of bases inserted in target |
| strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | AA964125 | varchar(255) | values | Query sequence name |
| qSize | 391 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 391 | int(10) unsigned | range | Alignment end position in query |
| tName | chr1 | varchar(255) | values | Target sequence name |
| tSize | 267910886 | int(10) unsigned | range | Target sequence size |
| tStart | 1399705 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 1400097 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 4 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 134,71,163,22, | longblob | | Size of each block |
| qStarts | 0,134,205,369, | longblob | | Start of each block in query. |
| tStarts | 1399705,1399840,1399912,140... | 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 | 316 | 5 | 69 | 0 | 1 | 1 | 2 | 2 | + | AA964125 | 391 | 0 | 391 | chr1 | 267910886 | 1399705 | 1400097 | 4 | 134,71,163,22, | 0,134,205,369, | 1399705,1399840,1399912,1400075, |
| 597 | 318 | 3 | 69 | 0 | 1 | 1 | 0 | 0 | - | AA964125 | 391 | 0 | 391 | chr1 | 267910886 | 1697266 | 1697656 | 2 | 24,366, | 0,25, | 1697266,1697290, |
| 601 | 384 | 6 | 0 | 0 | 1 | 1 | 1 | 1 | + | AA964125 | 391 | 0 | 391 | chr1 | 267910886 | 2120874 | 2121265 | 3 | 134,234,22, | 0,134,369, | 2120874,2121009,2121243, |
| 602 | 302 | 3 | 32 | 0 | 0 | 0 | 0 | 0 | - | AA851694 | 337 | 0 | 337 | chr1 | 267910886 | 2237581 | 2237918 | 1 | 337, | 0, | 2237581, |
| 602 | 317 | 1 | 70 | 1 | 5 | 5 | 0 | 0 | + | AA686047 | 394 | 0 | 394 | chr1 | 267910886 | 2283529 | 2283918 | 6 | 303,42,10,25,4,5, | 0,304,347,358,384,389, | 2283529,2283832,2283874,2283884,2283909,2283913, |
| 602 | 336 | 0 | 0 | 0 | 0 | 0 | 1 | 69 | + | AA685477 | 341 | 5 | 341 | chr1 | 267910886 | 2283625 | 2284030 | 2 | 331,5, | 5,336, | 2283625,2284025, |
| 602 | 582 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA943665 | 582 | 0 | 582 | chr1 | 267910886 | 2283745 | 2284327 | 1 | 582, | 0, | 2283745, |
| 602 | 241 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | + | AA685245 | 242 | 0 | 242 | chr1 | 267910886 | 2283775 | 2284016 | 2 | 192,49, | 0,193, | 2283775,2283967, |
| 602 | 254 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | - | AA685600 | 255 | 0 | 255 | chr1 | 267910886 | 2284072 | 2284327 | 1 | 255, | 0, | 2284072, |
| 602 | 415 | 1 | 0 | 0 | 1 | 19 | 0 | 0 | + | AA998578 | 450 | 15 | 450 | chr1 | 267910886 | 2286496 | 2286912 | 2 | 151,265, | 15,185, | 2286496,2286647, |
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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