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Database: panTro5 Primary Table: xenoMrna Row Count: 5,859,270 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 | description |
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| bin | 585 | smallint(5) unsigned | Indexing field to speed chromosome range queries. |
| matches | 205 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 0 | 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 | 195 | int(10) unsigned | Number of bases inserted in query |
| tNumInsert | 1 | int(10) unsigned | Number of inserts in target |
| tBaseInsert | 195 | int(10) unsigned | Number of bases inserted in target |
| strand | +- | char(2) | + or - for strand. First character query, second target (optional) |
| qName | AF086554 | varchar(255) | Query sequence name |
| qSize | 544 | int(10) unsigned | Query sequence size |
| qStart | 58 | int(10) unsigned | Alignment start position in query |
| qEnd | 458 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 228573443 | int(10) unsigned | Target sequence size |
| tStart | 2651 | int(10) unsigned | Alignment start position in target |
| tEnd | 3051 | int(10) unsigned | Alignment end position in target |
| blockCount | 2 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 160,45, | longblob | Size of each block |
| qStarts | 58,413, | longblob | Start of each block in query. |
| tStarts | 228570392,228570747, | 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 | 205 | 0 | 0 | 0 | 1 | 195 | 1 | 195 | +- | AF086554 | 544 | 58 | 458 | chr1 | 228573443 | 2651 | 3051 | 2 | 160,45, | 58,413, | 228570392,228570747, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV212078 | 32 | 0 | 32 | chr1 | 228573443 | 10664 | 10696 | 1 | 32, | 0, | 10664, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | JD231054 | 32 | 0 | 32 | chr1 | 228573443 | 10664 | 10696 | 1 | 32, | 0, | 10664, |
| 585 | 946 | 24 | 0 | 0 | 4 | 547 | 4 | 548 | ++ | BC118644 | 1517 | 0 | 1517 | chr1 | 228573443 | 10665 | 12183 | 6 | 34,263,162,120,169,222, | 0,195,458,766,888,1295, | 10665,10861,11126,11434,11554,11961, |
| 585 | 31 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV130037 | 32 | 0 | 32 | chr1 | 228573443 | 11467 | 11499 | 1 | 32, | 0, | 11467, |
| 585 | 31 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | JD149013 | 32 | 0 | 32 | chr1 | 228573443 | 11467 | 11499 | 1 | 32, | 0, | 11467, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV277206 | 32 | 0 | 32 | chr1 | 228573443 | 11494 | 11526 | 1 | 32, | 0, | 11494, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | JD296182 | 32 | 0 | 32 | chr1 | 228573443 | 11494 | 11526 | 1 | 32, | 0, | 11494, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV164737 | 32 | 0 | 32 | chr1 | 228573443 | 11558 | 11590 | 1 | 32, | 0, | 11558, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | JD183713 | 32 | 0 | 32 | chr1 | 228573443 | 11558 | 11590 | 1 | 32, | 0, | 11558, |
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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