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Database: aplCal1 Primary Table: all_est Row Count: 302,133 Data last updated: 2017-07-25
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 | 585 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 216 | 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 | 0 | int(10) unsigned | range | Number of bases that match but are part of repeats |
| nCount | 8 | int(10) unsigned | range | Number of 'N' bases |
| qNumInsert | 3 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 5 | 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 | BF708199 | varchar(255) | values | Query sequence name |
| qSize | 251 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 234 | int(10) unsigned | range | Alignment end position in query |
| tName | chrM | varchar(255) | values | Target sequence name |
| tSize | 14117 | int(10) unsigned | range | Target sequence size |
| tStart | 74 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 305 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 4 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 158,24,4,43, | longblob | | Size of each block |
| qStarts | 0,160,185,191, | longblob | | Start of each block in query. |
| tStarts | 74,233,257,262, | 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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| 585 | 216 | 5 | 0 | 8 | 3 | 5 | 2 | 2 | + | BF708199 | 251 | 0 | 234 | chrM | 14117 | 74 | 305 | 4 | 158,24,4,43, | 0,160,185,191, | 74,233,257,262, |
| 585 | 615 | 7 | 0 | 0 | 0 | 0 | 0 | 0 | + | BF707662 | 623 | 0 | 622 | chrM | 14117 | 97 | 719 | 1 | 622, | 0, | 97, |
| 585 | 656 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | + | BF707838 | 660 | 0 | 660 | chrM | 14117 | 97 | 757 | 1 | 660, | 0, | 97, |
| 585 | 603 | 6 | 0 | 0 | 0 | 0 | 1 | 1 | + | BF707772 | 610 | 1 | 610 | chrM | 14117 | 126 | 736 | 2 | 534,75, | 1,535, | 126,661, |
| 585 | 668 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | + | BF707669 | 673 | 0 | 673 | chrM | 14117 | 129 | 802 | 1 | 673, | 0, | 129, |
| 585 | 347 | 18 | 0 | 0 | 1 | 5 | 1 | 2 | + | BF707918 | 382 | 0 | 370 | chrM | 14117 | 1216 | 1583 | 2 | 282,83, | 0,287, | 1216,1500, |
| 585 | 567 | 2 | 0 | 4 | 1 | 2 | 1 | 1 | + | BF708086 | 575 | 0 | 575 | chrM | 14117 | 1676 | 2250 | 2 | 100,473, | 0,102, | 1676,1777, |
| 585 | 380 | 2 | 0 | 8 | 0 | 0 | 0 | 0 | + | BF708152 | 390 | 0 | 390 | chrM | 14117 | 1677 | 2067 | 1 | 390, | 0, | 1677, |
| 585 | 280 | 7 | 0 | 21 | 1 | 6 | 1 | 5 | + | BF708172 | 315 | 0 | 314 | chrM | 14117 | 1688 | 2001 | 2 | 99,209, | 0,105, | 1688,1792, |
| 585 | 386 | 4 | 0 | 0 | 0 | 0 | 2 | 2 | + | BF708249 | 390 | 0 | 390 | chrM | 14117 | 1689 | 2081 | 3 | 18,356,16, | 0,18,374, | 1689,1708,2065, |
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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