Comments (3)
iqbal-lab
commented on June 20, 2024
These are the alleles at site 79 - you will need to scroll right to see the end, and to notice
I have marked alleles 24 and 34
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCAT**TATGAAG**
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCCAAAAAGGATGAATGTAAAGGTGCATTAAAGCAT**TATGAAG**
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGAATGATTCACAACTATTAGAAATATCCAAAAAGGATGAATGTAAAGGTGCATTAAAGCAT**TATGAAG**
AGGATGTAATAAAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAACAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAGAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATGAATGTAAAGAAGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAA
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGGTGCATTAAAGAATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAAATTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGAATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAACAAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATGTCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAAGACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGAATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAATAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAA
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AAAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG 24
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCCAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATCAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGGTTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGATGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAATTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTGAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTTACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AAGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG 34
AGGATGTAATAAAACTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
AGGATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGGAGCATTAAAGCATTATGAAG
AGGATGTAATAAAATTATGTAATATCCAACAATTTACAAACCAGGATGATTCACAACTATTAGAAATATCAAAAGAGGATAAATGTAAAGGTGCATTAAAGCATTATGAAG
AGAATGTAATAGAATTATGTAATGTAAGACAAATTACAAACCAGAATGGTTCACAACTATTAGAAATATCAAAAAAGGATAAATGTAAAGAAGCATTAAAGCATTATGAAG
The next two bases after this site are AA
So our kmer TATGAAGAA overlaps many (in fact all except two) of these alleles, running past the right hand 79 marker and then finishing on the AA adjacent. I've highlighted the first few.
from gramtools.
iqbal-lab
commented on June 20, 2024
I think this issue is v old andmaybe dead @sm0179 ?
from gramtools.
sm0179
commented on June 20, 2024
yes
from gramtools.
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