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Database: rheMac8 Primary Table: all_est Row Count: 63,489   Data last updated: 2016-04-03
Format description: Summary info about a patSpace alignment On download server: MariaDB table dump directory
field | example | SQL type | info | description |
bin | 1083 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
matches | 301 | 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 | 0 | int(10) unsigned | range | Number of inserts in query |
qBaseInsert | 0 | int(10) unsigned | range | Number of bases inserted in query |
tNumInsert | 3 | int(10) unsigned | range | Number of inserts in target |
tBaseInsert | 13636 | int(10) unsigned | range | Number of bases inserted in target |
strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
qName | AB471888 | varchar(255) | values | Query sequence name |
qSize | 301 | int(10) unsigned | range | Query sequence size |
qStart | 0 | int(10) unsigned | range | Alignment start position in query |
qEnd | 301 | int(10) unsigned | range | Alignment end position in query |
tName | chr1 | varchar(255) | values | Target sequence name |
tSize | 225584828 | int(10) unsigned | range | Target sequence size |
tStart | 65354810 | int(10) unsigned | range | Alignment start position in target |
tEnd | 65368747 | int(10) unsigned | range | Alignment end position in target |
blockCount | 4 | int(10) unsigned | range | Number of blocks in alignment |
blockSizes | 46,106,76,73, | longblob | | Size of each block |
qStarts | 0,46,152,228, | longblob | | Start of each block in query. |
tStarts | 65354810,65356183,65357702,... | 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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1083 | 301 | 0 | 0 | 0 | 0 | 0 | 3 | 13636 | + | AB471888 | 301 | 0 | 301 | chr1 | 225584828 | 65354810 | 65368747 | 4 | 46,106,76,73, | 0,46,152,228, | 65354810,65356183,65357702,65368674, |
1083 | 393 | 1 | 0 | 0 | 0 | 0 | 4 | 13543 | + | AB471889 | 394 | 0 | 394 | chr1 | 225584828 | 65354810 | 65368747 | 5 | 46,106,76,93,73, | 0,46,152,228,321, | 65354810,65356183,65357702,65361565,65368674, |
1411 | 219 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | - | AF159450 | 222 | 0 | 222 | chr1 | 225584828 | 108304074 | 108304296 | 1 | 222, | 0, | 108304074, |
1563 | 185 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | - | AF089889 | 185 | 0 | 185 | chr1 | 225584828 | 128199717 | 128199902 | 1 | 185, | 0, | 128199717, |
1787 | 98 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF089732 | 98 | 0 | 98 | chr1 | 225584828 | 157611043 | 157611141 | 1 | 98, | 0, | 157611043, |
686 | 159 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF075126 | 165 | 0 | 160 | chr11 | 133663169 | 13297835 | 13297995 | 1 | 160, | 0, | 13297835, |
948 | 221 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF089731 | 222 | 0 | 222 | chr11 | 133663169 | 47600544 | 47600766 | 1 | 222, | 0, | 47600544, |
958 | 278 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF139027 | 279 | 0 | 279 | chr12 | 125506784 | 48916845 | 48917124 | 1 | 279, | 0, | 48916845, |
1090 | 284 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF075122 | 293 | 6 | 292 | chr12 | 125506784 | 66301695 | 66301981 | 1 | 286, | 6, | 66301695, |
1167 | 253 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | + | AF148885 | 253 | 0 | 253 | chr12 | 125506784 | 76385460 | 76385713 | 1 | 253, | 0, | 76385460, |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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