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Database: susScr11 Primary Table: all_est Row Count: 1,664,972 Data last updated: 2017-09-03
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 | 1213 | smallint(5) unsigned | Indexing field to speed chromosome range queries. |
| matches | 351 | int(10) unsigned | Number of bases that match that aren't repeats |
| misMatches | 2 | 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 | 8 | 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 | AA056886 | varchar(255) | Query sequence name |
| qSize | 377 | int(10) unsigned | Query sequence size |
| qStart | 16 | int(10) unsigned | Alignment start position in query |
| qEnd | 377 | int(10) unsigned | Alignment end position in query |
| tName | chr1 | varchar(255) | Target sequence name |
| tSize | 274330532 | int(10) unsigned | Target sequence size |
| tStart | 82358650 | int(10) unsigned | Alignment start position in target |
| tEnd | 82359011 | int(10) unsigned | Alignment end position in target |
| blockCount | 1 | int(10) unsigned | Number of blocks in alignment |
| blockSizes | 361, | longblob | Size of each block |
| qStarts | 0, | longblob | Start of each block in query. |
| tStarts | 82358650, | 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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| 1213 | 351 | 2 | 0 | 8 | 0 | 0 | 0 | 0 | - | AA056886 | 377 | 16 | 377 | chr1 | 274330532 | 82358650 | 82359011 | 1 | 361, | 0, | 82358650, |
| 1351 | 363 | 1 | 0 | 0 | 0 | 0 | 4 | 3761 | + | AA056913 | 364 | 0 | 364 | chr1 | 274330532 | 100445890 | 100450015 | 5 | 62,104,110,44,44, | 0,62,166,276,320, | 100445890,100446517,100449725,100449926,100449971, |
| 1351 | 412 | 5 | 0 | 0 | 1 | 1 | 0 | 0 | - | AA056914 | 418 | 0 | 418 | chr1 | 274330532 | 100475094 | 100475511 | 2 | 67,350, | 0,68, | 100475094,100475161, |
| 2000 | 383 | 0 | 0 | 1 | 2 | 7 | 3 | 3 | + | AA056918 | 391 | 0 | 391 | chr1 | 274330532 | 185588420 | 185588807 | 5 | 31,76,257,14,6, | 0,32,114,371,385, | 185588420,185588451,185588528,185588786,185588801, |
| 2531 | 233 | 7 | 0 | 20 | 1 | 1 | 0 | 0 | - | AA056891 | 306 | 45 | 306 | chr1 | 274330532 | 255158884 | 255159144 | 2 | 229,31, | 0,230, | 255158884,255159113, |
| 717 | 188 | 1 | 0 | 3 | 0 | 0 | 0 | 0 | - | AA063650 | 199 | 7 | 199 | chr10 | 69359453 | 17416346 | 17416538 | 1 | 192, | 0, | 17416346, |
| 731 | 494 | 2 | 0 | 7 | 0 | 0 | 0 | 0 | + | AA056920 | 503 | 0 | 503 | chr11 | 79169978 | 19219835 | 19220338 | 1 | 503, | 0, | 19219835, |
| 731 | 386 | 4 | 0 | 16 | 5 | 6 | 1 | 1 | - | AA056921 | 412 | 0 | 412 | chr11 | 79169978 | 19219886 | 19220293 | 6 | 44,5,185,126,29,17, | 0,45,51,238,365,395, | 19219886,19219930,19219935,19220121,19220247,19220276, |
| 909 | 314 | 1 | 0 | 7 | 0 | 0 | 1 | 118 | + | AA063653 | 328 | 6 | 328 | chr12 | 61602749 | 42500102 | 42500542 | 2 | 225,97, | 6,231, | 42500102,42500445, |
| 1006 | 299 | 1 | 0 | 0 | 1 | 1 | 0 | 0 | + | AA063668 | 420 | 115 | 416 | chr12 | 61602749 | 55226599 | 55226899 | 2 | 284,16, | 115,400, | 55226599,55226883, |
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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