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Database: canFam1 Primary Table: est (chr1_est) Row Count: 24,052 Data last updated: 2016-07-08
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | info | description |
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| bin | 1461 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 390 | int(10) unsigned | range | Number of bases that match that aren't repeats |
| misMatches | 0 | int(10) unsigned | range | Number of bases that don't match |
| repMatches | 0 | int(10) unsigned | range | Number of bases that match but are part of repeats |
| nCount | 0 | int(10) unsigned | range | Number of 'N' bases |
| qNumInsert | 2 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 3 | int(10) unsigned | range | Number of bases inserted in query |
| tNumInsert | 5 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 7548 | int(10) unsigned | range | Number of bases inserted in target |
| strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | AB042265 | varchar(255) | values | Query sequence name |
| qSize | 393 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 393 | int(10) unsigned | range | Alignment end position in query |
| tName | chr1 | varchar(255) | values | Target sequence name |
| tSize | 124897793 | int(10) unsigned | range | Target sequence size |
| tStart | 114823103 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 114831041 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 7 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 14,29,54,78,148,52,15, | longblob | | Size of each block |
| qStarts | 0,16,46,100,178,326,378, | longblob | | Start of each block in query. |
| tStarts | 114823103,114823118,1148231... | 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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| 1461 | 390 | 0 | 0 | 0 | 2 | 3 | 5 | 7548 | + | AB042265 | 393 | 0 | 393 | chr1 | 124897793 | 114823103 | 114831041 | 7 | 14,29,54,78,148,52,15, | 0,16,46,100,178,326,378, | 114823103,114823118,114823147,114824857,114825116,114830973,114831026, |
| 719 | 562 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ536899 | 568 | 4 | 568 | chr1 | 124897793 | 17681334 | 17681898 | 1 | 564, | 4, | 17681334, |
| 719 | 512 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | - | AJ536900 | 535 | 19 | 535 | chr1 | 124897793 | 17682069 | 17682585 | 1 | 516, | 0, | 17682069, |
| 736 | 201 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ536893 | 275 | 10 | 213 | chr1 | 124897793 | 19913116 | 19913319 | 1 | 203, | 10, | 19913116, |
| 768 | 483 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | + | AJ537377 | 483 | 0 | 483 | chr1 | 124897793 | 24046053 | 24046537 | 2 | 326,157, | 0,326, | 24046053,24046380, |
| 819 | 571 | 1 | 0 | 0 | 1 | 1 | 1 | 2 | - | AJ536901 | 598 | 0 | 573 | chr1 | 124897793 | 30685930 | 30686504 | 2 | 426,146, | 25,452, | 30685930,30686358, |
| 877 | 704 | 3 | 0 | 0 | 0 | 0 | 3 | 575 | - | AJ536902 | 729 | 20 | 727 | chr1 | 124897793 | 38368636 | 38369918 | 4 | 71,53,201,382, | 2,73,126,327, | 38368636,38368985,38369206,38369536, |
| 884 | 473 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | + | AJ536896 | 477 | 0 | 477 | chr1 | 124897793 | 39221026 | 39221503 | 1 | 477, | 0, | 39221026, |
| 1072 | 478 | 2 | 0 | 0 | 0 | 0 | 1 | 10079 | - | AJ536897 | 483 | 0 | 480 | chr1 | 124897793 | 63862831 | 63873390 | 2 | 110,370, | 3,113, | 63862831,63873020, |
| 1077 | 344 | 5 | 0 | 2 | 4 | 19 | 11 | 39 | - | AJ407838 | 505 | 8 | 378 | chr1 | 124897793 | 64532978 | 64533368 | 12 | 5,7,11,5,4,4,8,6,12,19,8,262, | 127,132,144,155,161,173,177,185,191,208,227,235, | 64532978,64532984,64533000,64533012,64533019,64533035,64533040,64533049,64533056,64533076,64533097,64533106, |
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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