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Database: panTro4 Primary Table: xenoMrna Row Count: 7,477,311 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 | 31 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 1 | 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 | 0 | int(10) unsigned | Number of inserts in query |
| qBaseInsert | 0 | int(10) unsigned | Number of bases inserted in query |
| tNumInsert | 0 | int(10) unsigned | Number of inserts in target |
| tBaseInsert | 0 | int(10) unsigned | Number of bases inserted in target |
| strand | +- | char(2) | + or - for strand. First character query, second target (optional) |
| qName | JD469940 | varchar(255) | Query sequence name |
| qSize | 32 | int(10) unsigned | Query sequence size |
| qStart | 0 | int(10) unsigned | Alignment start position in query |
| qEnd | 32 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 228333871 | int(10) unsigned | Target sequence size |
| tStart | 77670 | int(10) unsigned | Alignment start position in target |
| tEnd | 77702 | int(10) unsigned | Alignment end position in target |
| blockCount | 1 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 32, | longblob | Size of each block |
| qStarts | 0, | longblob | Start of each block in query. |
| tStarts | 228256169, | 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 | 31 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD469940 | 32 | 0 | 32 | chr1 | 228333871 | 77670 | 77702 | 1 | 32, | 0, | 228256169, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD483070 | 32 | 0 | 32 | chr1 | 228333871 | 77670 | 77702 | 1 | 32, | 0, | 228256169, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD454660 | 32 | 0 | 32 | chr1 | 228333871 | 77695 | 77727 | 1 | 32, | 0, | 228256144, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD496763 | 32 | 0 | 32 | chr1 | 228333871 | 77772 | 77804 | 1 | 32, | 0, | 228256067, |
| 585 | 140 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | LE331996 | 619 | 167 | 310 | chr1 | 228333871 | 77862 | 78005 | 1 | 143, | 167, | 77862, |
| 585 | 31 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD200225 | 32 | 0 | 32 | chr1 | 228333871 | 77929 | 77961 | 1 | 32, | 0, | 228255910, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD492450 | 32 | 0 | 32 | chr1 | 228333871 | 77960 | 77992 | 1 | 32, | 0, | 228255879, |
| 585 | 31 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD485719 | 32 | 0 | 32 | chr1 | 228333871 | 78636 | 78668 | 1 | 32, | 0, | 228255203, |
| 73 | 958 | 35 | 0 | 0 | 6 | 1105 | 6 | 24399 | +- | AL137655 | 3617 | 709 | 2807 | chr1 | 228333871 | 130136 | 155528 | 7 | 103,96,180,68,36,266,244, | 709,1149,1555,1753,2087,2187,2563, | 228178343,228178754,228192988,228194027,228196926,228202795,228203491, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | +- | JD262631 | 32 | 0 | 32 | chr1 | 228333871 | 130169 | 130201 | 1 | 32, | 0, | 228203670, |
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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