|
|---|
| |
Database: rn5 Primary Table: all_est Row Count: 1,118,812 Data last updated: 2016-04-30
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | description |
|---|
| bin | 608 | 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 | 290094216 | int(10) unsigned | Target sequence size |
| tStart | 3092790 | int(10) unsigned | Alignment start position in target |
| tEnd | 3093181 | 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 | 3092790,3092925,3093159, | longblob | Start of each block in target. |
|
| |
|
|
|
Connected Tables and Joining Fields
|
|
|
Sample Rows
|
|---|
| |
| bin | matches | misMatches | repMatches | nCount | qNumInsert | qBaseInsert | tNumInsert | tBaseInsert | strand | qName | qSize | qStart | qEnd | tName | tSize | tStart | tEnd | blockCount | blockSizes | qStarts | tStarts |
|---|
| 608 | 385 | 5 | 0 | 0 | 1 | 1 | 1 | 1 | + | AA964125 | 391 | 0 | 391 | chr1 | 290094216 | 3092790 | 3093181 | 3 | 134,234,22, | 0,134,369, | 3092790,3092925,3093159, |
| 610 | 302 | 3 | 32 | 0 | 0 | 0 | 0 | 0 | - | AA851694 | 337 | 0 | 337 | chr1 | 290094216 | 3382070 | 3382407 | 1 | 337, | 0, | 3382070, |
| 611 | 317 | 1 | 70 | 1 | 5 | 5 | 0 | 0 | + | AA686047 | 394 | 0 | 394 | chr1 | 290094216 | 3428091 | 3428480 | 6 | 303,42,10,25,4,5, | 0,304,347,358,384,389, | 3428091,3428394,3428436,3428446,3428471,3428475, |
| 611 | 336 | 0 | 0 | 0 | 0 | 0 | 1 | 69 | + | AA685477 | 341 | 5 | 341 | chr1 | 290094216 | 3428187 | 3428592 | 2 | 331,5, | 5,336, | 3428187,3428587, |
| 611 | 582 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA943665 | 582 | 0 | 582 | chr1 | 290094216 | 3428307 | 3428889 | 1 | 582, | 0, | 3428307, |
| 611 | 241 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | + | AA685245 | 242 | 0 | 242 | chr1 | 290094216 | 3428337 | 3428578 | 2 | 192,49, | 0,193, | 3428337,3428529, |
| 611 | 254 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | - | AA685600 | 255 | 0 | 255 | chr1 | 290094216 | 3428634 | 3428889 | 1 | 255, | 0, | 3428634, |
| 611 | 415 | 1 | 0 | 0 | 1 | 19 | 0 | 0 | + | AA998578 | 450 | 15 | 450 | chr1 | 290094216 | 3431058 | 3431474 | 2 | 151,265, | 15,185, | 3431058,3431209, |
| 611 | 549 | 2 | 5 | 1 | 1 | 19 | 0 | 0 | + | AA800177 | 576 | 0 | 576 | chr1 | 290094216 | 3431081 | 3431638 | 2 | 128,429, | 0,147, | 3431081,3431209, |
| 611 | 374 | 1 | 0 | 0 | 1 | 19 | 0 | 0 | + | AA849093 | 394 | 0 | 394 | chr1 | 290094216 | 3431086 | 3431461 | 2 | 123,252, | 0,142, | 3431086,3431209, |
|
Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
| |
|
|
|
US Server