Hi All,
Can anyone explain what does all the pipes and letters mean in the blastn (local blast, ncbi-blast+ on linux terminal)?
are those alternatives to the main solution?
Query_1 1381 GGCAATGCGGTGAACGCCATGTCTACCTATCTTCCCGTGCAAGACGGGACGTACCATCAG 1440
178688 9271 GGCAATGCGGTGAACGCCATGTCTACCTATCTTCCCGTGCAAGACGGGACGTACCATCAG 9330
97017 10239 --CAATGCGGTGAACGCCATGTCCGCATATCTTCCCGTGCAAGACGGGACGTACCATCAA 10173
\ \\\ \
| ||| |
TT GAAT C
||
C|
|
C
Thanks,
Raz
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barvazduck •
Not sure if this link will come through but here goes: https://books.google.com/books?id=zDqksXUaoBAC&pg=PT312&lpg=PT312&dq=query-anchored+showing+identities
The representation may have changed with blast+ since the book refers to the older version of blast. Checking to see what the new outfmt '1' looks like now.
Great thanks!!
these are insertions that do not occur in the query seq. it became clear when I used outfmt 3
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Formatting is making it hard to see what is being represented in the "code" part. What output format option was used to get this?
What is the problem with formatting? I can see clearly on my computer.
I think it just depends on the size of your monitor. Adjusting the zoom should allow you to visualise the alignment properly.