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Database: galGal4 Primary Table: all_mrna Row Count: 32,333 Data last updated: 2020-08-21
Format description: Summary info about a patSpace alignment On download server: MariaDB table dump directory
field | example | SQL type | info | description |
bin | 585 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
matches | 771 | int(10) unsigned | range | Number of bases that match that aren't repeats |
misMatches | 22 | int(10) unsigned | range | Number of bases that don't match |
repMatches | 100 | 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 | 2 | int(10) unsigned | range | Number of inserts in target |
tBaseInsert | 291 | int(10) unsigned | range | Number of bases inserted in target |
strand | + | char(2) | values | + or - for strand. First character query, second target (optional) |
qName | CR405839 | varchar(255) | values | Query sequence name |
qSize | 895 | int(10) unsigned | range | Query sequence size |
qStart | 0 | int(10) unsigned | range | Alignment start position in query |
qEnd | 893 | int(10) unsigned | range | Alignment end position in query |
tName | chr1 | varchar(255) | values | Target sequence name |
tSize | 195276750 | int(10) unsigned | range | Target sequence size |
tStart | 15046 | int(10) unsigned | range | Alignment start position in target |
tEnd | 16230 | int(10) unsigned | range | Alignment end position in target |
blockCount | 3 | int(10) unsigned | range | Number of blocks in alignment |
blockSizes | 143,107,643, | longblob | | Size of each block |
qStarts | 0,143,250, | longblob | | Start of each block in query. |
tStarts | 15046,15391,15587, | 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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585 | 771 | 22 | 100 | 0 | 0 | 0 | 2 | 291 | + | CR405839 | 895 | 0 | 893 | chr1 | 195276750 | 15046 | 16230 | 3 | 143,107,643, | 0,143,250, | 15046,15391,15587, |
585 | 87 | 2 | 696 | 0 | 0 | 0 | 0 | 0 | + | BX950596 | 785 | 0 | 785 | chr1 | 195276750 | 28640 | 29425 | 1 | 785, | 0, | 28640, |
585 | 606 | 1 | 107 | 0 | 0 | 0 | 4 | 4149 | + | CR352480 | 759 | 42 | 756 | chr1 | 195276750 | 41110 | 45973 | 5 | 119,103,153,153,186, | 42,161,264,417,570, | 41110,42409,43331,44205,45787, |
585 | 2261 | 11 | 288 | 0 | 0 | 0 | 14 | 9448 | + | AJ719284 | 2586 | 0 | 2560 | chr1 | 195276750 | 77009 | 89017 | 15 | 66,84,74,130,111,55,111,111,56,70,134,108,295,72,1083, | 0,66,150,224,354,465,520,631,742,798,868,1002,1110,1405,1477, | 77009,79071,80408,80609,81604,82298,83944,84189,84590,85139,85419,86072,86552,87495,87934, |
585 | 762 | 0 | 68 | 0 | 0 | 0 | 4 | 1510 | + | BX929788 | 831 | 1 | 831 | chr1 | 195276750 | 103903 | 106243 | 5 | 433,161,40,103,93, | 1,434,595,635,738, | 103903,104561,105106,105955,106150, |
585 | 772 | 0 | 68 | 0 | 0 | 0 | 4 | 1510 | - | CR732872 | 840 | 0 | 840 | chr1 | 195276750 | 103904 | 106254 | 5 | 432,161,40,103,104, | 0,432,593,633,736, | 103904,104561,105106,105955,106150, |
585 | 934 | 6 | 71 | 0 | 0 | 0 | 7 | 2888 | + | BX930967 | 1020 | 9 | 1020 | chr1 | 195276750 | 106357 | 110256 | 8 | 121,30,80,80,112,98,84,406, | 9,130,160,240,320,432,530,614, | 106357,106554,106689,107726,108583,109152,109484,109850, |
585 | 934 | 5 | 71 | 0 | 0 | 0 | 7 | 2888 | + | BX933167 | 1010 | 0 | 1010 | chr1 | 195276750 | 106358 | 110256 | 8 | 120,30,80,80,112,98,84,406, | 0,120,150,230,310,422,520,604, | 106358,106554,106689,107726,108583,109152,109484,109850, |
585 | 987 | 0 | 96 | 0 | 0 | 0 | 3 | 973 | + | BX950545 | 1083 | 0 | 1083 | chr1 | 195276750 | 108200 | 110256 | 4 | 495,98,84,406, | 0,495,593,677, | 108200,109152,109484,109850, |
588 | 182 | 2 | 56 | 0 | 1 | 262 | 1 | 1422 | - | X55998 | 813 | 8 | 510 | chr1 | 195276750 | 427004 | 428666 | 2 | 127,113, | 303,692, | 427004,428553, |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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