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Database: susScr2 Primary Table: all_est Row Count: 1,513,362 Data last updated: 2016-07-11
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 | 1244 | 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 | 295529705 | int(10) unsigned | Target sequence size |
| tStart | 86461623 | int(10) unsigned | Alignment start position in target |
| tEnd | 86461984 | 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 | 86461623, | 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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| 1244 | 351 | 2 | 0 | 8 | 0 | 0 | 0 | 0 | - | AA056886 | 377 | 16 | 377 | chr1 | 295529705 | 86461623 | 86461984 | 1 | 361, | 0, | 86461623, |
| 1375 | 363 | 1 | 0 | 0 | 0 | 0 | 4 | 3761 | + | AA056913 | 364 | 0 | 364 | chr1 | 295529705 | 103663268 | 103667393 | 5 | 62,104,110,44,44, | 0,62,166,276,320, | 103663268,103663895,103667103,103667304,103667349, |
| 1376 | 412 | 5 | 0 | 0 | 1 | 1 | 0 | 0 | - | AA056914 | 418 | 0 | 418 | chr1 | 295529705 | 103713692 | 103714109 | 2 | 67,350, | 0,68, | 103713692,103713759, |
| 2631 | 232 | 6 | 0 | 19 | 3 | 4 | 1 | 3 | - | AA056891 | 306 | 45 | 306 | chr1 | 295529705 | 268207802 | 268208062 | 4 | 107,33,86,31, | 0,109,143,230, | 268207802,268207912,268207945,268208031, |
| 2631 | 232 | 6 | 0 | 19 | 3 | 4 | 1 | 3 | + | AA056891 | 306 | 45 | 306 | chr1 | 295529705 | 268253672 | 268253932 | 4 | 31,86,33,107, | 45,77,164,199, | 268253672,268253703,268253789,268253825, |
| 714 | 174 | 1 | 14 | 3 | 0 | 0 | 0 | 0 | + | AA063650 | 199 | 7 | 199 | chr10 | 66736929 | 16961234 | 16961426 | 1 | 192, | 7, | 16961234, |
| 727 | 492 | 4 | 0 | 7 | 0 | 0 | 0 | 0 | + | AA056920 | 503 | 0 | 503 | chr11 | 79814395 | 18672267 | 18672770 | 1 | 503, | 0, | 18672267, |
| 727 | 381 | 4 | 0 | 16 | 5 | 11 | 2 | 6 | - | AA056921 | 412 | 0 | 412 | chr11 | 79814395 | 18672318 | 18672725 | 6 | 44,5,180,126,29,17, | 0,45,56,238,365,395, | 18672318,18672362,18672372,18672553,18672679,18672708, |
| 891 | 299 | 1 | 15 | 7 | 0 | 0 | 1 | 118 | + | AA063653 | 328 | 6 | 328 | chr12 | 57431344 | 40189988 | 40190428 | 2 | 225,97, | 6,231, | 40189988,40190331, |
| 984 | 299 | 1 | 0 | 0 | 1 | 1 | 0 | 0 | - | AA063668 | 420 | 115 | 416 | chr12 | 57431344 | 52314630 | 52314930 | 2 | 16,284, | 4,21, | 52314630,52314646, |
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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