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Database: rheMac3 Primary Table: all_mrna Row Count: 388,811 Data last updated: 2020-08-22
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 | 359 | 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 | 0 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 0 | int(10) unsigned | range | Number of bases inserted in query |
| tNumInsert | 0 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 0 | int(10) unsigned | range | Number of bases inserted in target |
| strand | - | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | JU339375 | varchar(255) | values | Query sequence name |
| qSize | 364 | int(10) unsigned | range | Query sequence size |
| qStart | 5 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 364 | int(10) unsigned | range | Alignment end position in query |
| tName | chr1 | varchar(255) | values | Target sequence name |
| tSize | 229590362 | int(10) unsigned | range | Target sequence size |
| tStart | 61054 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 61413 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 1 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 359, | longblob | | Size of each block |
| qStarts | 0, | longblob | | Start of each block in query. |
| tStarts | 61054, | 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 | 359 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | JU339375 | 364 | 5 | 364 | chr1 | 229590362 | 61054 | 61413 | 1 | 359, | 0, | 61054, |
| 585 | 753 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV707872 | 940 | 184 | 940 | chr1 | 229590362 | 61054 | 61810 | 1 | 756, | 0, | 61054, |
| 585 | 751 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV607037 | 864 | 109 | 863 | chr1 | 229590362 | 61056 | 61810 | 1 | 754, | 1, | 61056, |
| 585 | 226 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV458149 | 226 | 0 | 226 | chr1 | 229590362 | 61078 | 61304 | 1 | 226, | 0, | 61078, |
| 585 | 466 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV496068 | 466 | 0 | 466 | chr1 | 229590362 | 61081 | 61547 | 1 | 466, | 0, | 61081, |
| 585 | 366 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV052879 | 366 | 0 | 366 | chr1 | 229590362 | 61082 | 61448 | 1 | 366, | 0, | 61082, |
| 585 | 716 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV643404 | 854 | 133 | 854 | chr1 | 229590362 | 61089 | 61810 | 1 | 721, | 0, | 61089, |
| 585 | 338 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV674183 | 338 | 0 | 338 | chr1 | 229590362 | 61102 | 61440 | 1 | 338, | 0, | 61102, |
| 585 | 564 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV572471 | 565 | 0 | 565 | chr1 | 229590362 | 61136 | 61701 | 1 | 565, | 0, | 61136, |
| 585 | 621 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | - | JV534611 | 703 | 78 | 703 | chr1 | 229590362 | 61185 | 61810 | 1 | 625, | 0, | 61185, |
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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