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Database: hg38 Primary Table: xenoMrna Row Count: 5,982,624 Data last updated: 2020-08-17
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 | 123 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 24 | 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 | 63 | int(10) unsigned | Number of bases inserted in query |
| tNumInsert | 2 | int(10) unsigned | Number of inserts in target |
| tBaseInsert | 727 | int(10) unsigned | Number of bases inserted in target |
| strand | +- | char(2) | + or - for strand. First character query, second target (optional) |
| qName | JW202462 | varchar(255) | Query sequence name |
| qSize | 311 | int(10) unsigned | Query sequence size |
| qStart | 47 | int(10) unsigned | Alignment start position in query |
| qEnd | 257 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 248956422 | int(10) unsigned | Target sequence size |
| tStart | 12179 | int(10) unsigned | Alignment start position in target |
| tEnd | 13053 | int(10) unsigned | Alignment end position in target |
| blockCount | 3 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 48,53,46, | longblob | Size of each block |
| qStarts | 47,158,211, | longblob | Start of each block in query. |
| tStarts | 248943369,248943759,248944197, | 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 | 123 | 24 | 0 | 0 | 1 | 63 | 2 | 727 | +- | JW202462 | 311 | 47 | 257 | chr1 | 248956422 | 12179 | 13053 | 3 | 48,53,46, | 47,158,211, | 248943369,248943759,248944197, |
| 585 | 498 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | +- | LE121501 | 501 | 0 | 501 | chr1 | 248956422 | 12281 | 12782 | 1 | 501, | 0, | 248943640, |
| 585 | 409 | 8 | 0 | 0 | 0 | 0 | 1 | 1 | ++ | LE121503 | 417 | 0 | 417 | chr1 | 248956422 | 12740 | 13158 | 2 | 375,42, | 0,375, | 12740,13116, |
| 585 | 77 | 19 | 0 | 0 | 0 | 0 | 1 | 168 | ++ | LH019770 | 242 | 60 | 156 | chr1 | 248956422 | 13006 | 13270 | 2 | 46,50, | 60,106, | 13006,13220, |
| 585 | 458 | 40 | 0 | 0 | 2 | 3 | 0 | 0 | ++ | JV496772 | 526 | 25 | 526 | chr1 | 248956422 | 13809 | 14307 | 3 | 130,258,110, | 25,156,416, | 13809,13939,14197, |
| 585 | 341 | 24 | 0 | 0 | 2 | 3 | 0 | 0 | ++ | JV573147 | 368 | 0 | 368 | chr1 | 248956422 | 13875 | 14240 | 3 | 64,258,43, | 0,65,325, | 13875,13939,14197, |
| 585 | 31 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV173789 | 32 | 0 | 31 | chr1 | 248956422 | 13877 | 13908 | 1 | 31, | 0, | 13877, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV172655 | 32 | 0 | 32 | chr1 | 248956422 | 13932 | 13964 | 1 | 32, | 0, | 13932, |
| 585 | 32 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | ++ | GV116231 | 32 | 0 | 32 | chr1 | 248956422 | 13939 | 13971 | 1 | 32, | 0, | 13939, |
| 585 | 531 | 5 | 0 | 0 | 0 | 0 | 1 | 12 | +- | LE250499 | 536 | 0 | 536 | chr1 | 248956422 | 13972 | 14520 | 2 | 249,287, | 0,249, | 248941902,248942163, |
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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