|
|---|
| |
Database: calJac1 Primary Table: all_est Row Count: 391,331 Data last updated: 2016-05-27
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | info | description |
|---|
| bin | 600 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 675 | int(10) unsigned | range | Number of bases that match that aren't repeats |
| misMatches | 2 | 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 | 1 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 1 | int(10) unsigned | range | Number of bases inserted in target |
| strand | - | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | EH380431 | varchar(255) | values | Query sequence name |
| qSize | 680 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 677 | int(10) unsigned | range | Alignment end position in query |
| tName | Contig0 | varchar(255) | values | Target sequence name |
| tSize | 2416186 | int(10) unsigned | range | Target sequence size |
| tStart | 2056416 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 2057094 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 2 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 4,673, | longblob | | Size of each block |
| qStarts | 3,7, | longblob | | Start of each block in query. |
| tStarts | 2056416,2056421, | 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 |
|---|
| 600 | 675 | 2 | 0 | 0 | 0 | 0 | 1 | 1 | - | EH380431 | 680 | 0 | 677 | Contig0 | 2416186 | 2056416 | 2057094 | 2 | 4,673, | 3,7, | 2056416,2056421, |
| 600 | 680 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | EH380456 | 680 | 0 | 680 | Contig0 | 2416186 | 2056598 | 2057278 | 1 | 680, | 0, | 2056598, |
| 587 | 390 | 0 | 290 | 0 | 0 | 0 | 0 | 0 | + | EH382653 | 680 | 0 | 680 | Contig1 | 2551648 | 274032 | 274712 | 1 | 680, | 0, | 274032, |
| 587 | 387 | 3 | 289 | 0 | 1 | 1 | 0 | 0 | + | EH382748 | 680 | 0 | 680 | Contig1 | 2551648 | 274035 | 274714 | 2 | 28,651, | 0,29, | 274035,274063, |
| 590 | 366 | 1 | 313 | 0 | 0 | 0 | 2 | 6683 | + | EH380344 | 680 | 0 | 680 | Contig1 | 2551648 | 732413 | 739776 | 3 | 357,308,15, | 0,357,665, | 732413,739452,739761, |
| 590 | 210 | 5 | 465 | 0 | 0 | 0 | 1 | 1 | + | EH382784 | 680 | 0 | 680 | Contig1 | 2551648 | 739171 | 739852 | 2 | 671,9, | 0,671, | 739171,739843, |
| 598 | 440 | 1 | 239 | 0 | 0 | 0 | 0 | 0 | + | EH380513 | 680 | 0 | 680 | Contig1 | 2551648 | 1732698 | 1733378 | 1 | 680, | 0, | 1732698, |
| 601 | 654 | 3 | 22 | 0 | 0 | 0 | 0 | 0 | + | EH382384 | 680 | 0 | 679 | Contig1 | 2551648 | 2204672 | 2205351 | 1 | 679, | 0, | 2204672, |
| 603 | 670 | 7 | 0 | 0 | 3 | 3 | 5 | 398 | - | EH382341 | 680 | 0 | 680 | Contig1 | 2551648 | 2407622 | 2408697 | 8 | 4,342,14,13,24,14,120,146, | 0,4,346,361,374,399,414,534, | 2407622,2407627,2408361,2408375,2408389,2408416,2408430,2408551, |
| 587 | 674 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | + | EH380974 | 680 | 0 | 680 | Contig10 | 1061368 | 321851 | 322531 | 1 | 680, | 0, | 321851, |
|
Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
| |
|
|
|
US Server