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Database: mm39 Primary Table: all_est Row Count: 5,269,821 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 | 609 | smallint(5) unsigned | Indexing field to speed chromosome range queries. |
| matches | 118 | 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 | 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 | AA549021 | varchar(255) | Query sequence name |
| qSize | 118 | int(10) unsigned | Query sequence size |
| qStart | 0 | int(10) unsigned | Alignment start position in query |
| qEnd | 118 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 195154279 | int(10) unsigned | Target sequence size |
| tStart | 3147192 | int(10) unsigned | Alignment start position in target |
| tEnd | 3147310 | int(10) unsigned | Alignment end position in target |
| blockCount | 1 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 118, | longblob | Size of each block |
| qStarts | 0, | longblob | Start of each block in query. |
| tStarts | 3147192, | 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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| 609 | 118 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA549021 | 118 | 0 | 118 | chr1 | 195154279 | 3147192 | 3147310 | 1 | 118, | 0, | 3147192, |
| 609 | 54 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA624004 | 75 | 0 | 54 | chr1 | 195154279 | 3147247 | 3147301 | 1 | 54, | 21, | 3147247, |
| 609 | 45 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA682002 | 65 | 20 | 65 | chr1 | 195154279 | 3147263 | 3147308 | 1 | 45, | 0, | 3147263, |
| 609 | 245 | 7 | 0 | 0 | 2 | 30 | 2 | 42 | + | AA517615 | 500 | 0 | 282 | chr1 | 195154279 | 3224445 | 3224739 | 4 | 20,201,18,13, | 0,20,250,269, | 3224445,3224484,3224708,3224726, |
| 609 | 169 | 4 | 0 | 0 | 0 | 0 | 1 | 1 | + | AA538072 | 180 | 0 | 173 | chr1 | 195154279 | 3226103 | 3226277 | 2 | 157,16, | 0,157, | 3226103,3226261, |
| 609 | 45 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA682002 | 65 | 20 | 65 | chr1 | 195154279 | 3245853 | 3245898 | 1 | 45, | 0, | 3245853, |
| 609 | 157 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA623689 | 159 | 0 | 159 | chr1 | 195154279 | 3246054 | 3246213 | 1 | 159, | 0, | 3246054, |
| 609 | 161 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA672930 | 170 | 9 | 170 | chr1 | 195154279 | 3246054 | 3246215 | 1 | 161, | 0, | 3246054, |
| 611 | 148 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | + | AA174649 | 154 | 6 | 154 | chr1 | 195154279 | 3417150 | 3417298 | 1 | 148, | 6, | 3417150, |
| 613 | 378 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | - | AA691122 | 379 | 0 | 379 | chr1 | 195154279 | 3683127 | 3683506 | 1 | 379, | 0, | 3683127, |
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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