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Database: susScr3 Primary Table: xenoMrna Row Count: 7,979,587 Data last updated: 2020-09-01
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 | 88 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 8 | 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 | 2 | int(10) unsigned | Number of bases inserted in target |
| strand | +- | char(2) | + or - for strand. First character query, second target (optional) |
| qName | JO336321 | varchar(255) | Query sequence name |
| qSize | 507 | int(10) unsigned | Query sequence size |
| qStart | 119 | int(10) unsigned | Alignment start position in query |
| qEnd | 216 | int(10) unsigned | Alignment end position in query |
| tName | GL892100-1 | varchar(255) | Target sequence name |
| tSize | 100 | int(10) unsigned | Target sequence size |
| tStart | 2 | int(10) unsigned | Alignment start position in target |
| tEnd | 100 | int(10) unsigned | Alignment end position in target |
| blockCount | 2 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 75,21, | longblob | Size of each block |
| qStarts | 119,195, | longblob | Start of each block in query. |
| tStarts | 0,77, | 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 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO336321 | 507 | 119 | 216 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 119,195, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO369186 | 2396 | 17 | 114 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 17,93, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO369187 | 2510 | 17 | 114 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 17,93, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO369188 | 1992 | 17 | 114 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 17,93, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO388430 | 526 | 143 | 240 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 143,219, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO401226 | 2998 | 79 | 176 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 79,155, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO426791 | 2986 | 127 | 224 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 127,203, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO600143 | 4248 | 1198 | 1295 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 1198,1274, | 0,77, |
| 585 | 88 | 8 | 0 | 0 | 1 | 1 | 1 | 2 | +- | JO630510 | 514 | 187 | 284 | GL892100-1 | 100 | 2 | 100 | 2 | 75,21, | 187,263, | 0,77, |
| 585 | 90 | 9 | 0 | 0 | 0 | 0 | 0 | 0 | +- | DQ525410 | 2261 | 636 | 735 | GL892101-1 | 101 | 0 | 99 | 1 | 99, | 636, | 2, |
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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