How to align two (or multiple) sequences, one (or part) of which is segmented?
How to align two (or multiple) sequences, one (or part) of which is segmented? For example, given the following two sequences
AABBBC
DBBBC
If I know that the segmentation of the first is
AA | BBB | C
I want to align these two sequences while keeping the original segment of the first sequence. Is there any algorithm supporting this? Thanks!
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Finding suboptimal alignments
written by trinityduke100 •
-
A tool or algorithm to unify (combine) two sequences based on their global alignment?
written by ehsansepahi •
-
Cannot figure out the reason for this error message: GISTIC 2.0 input error detected: All input dat…
written by morten.rye •
-
Multiple Sequence Alignment using muscle
written by atitparajuli2018 •
-
Filtering number of markers after segmentation using DNAcopy
written by jrlarsen •
-
Pruning CNA Data from TCGA
written by jrlarsen •
-
The ABSOLUTE input and HAPSEG output format
written by shiyang93 •
-
How to determine the average distance between known motif in a list of DNA sequences
written by kevinm •
-
Protein Sequence Alignment
written by pwg46
-
How Scores are given in Substitution matrix like PAM and BLOSUM?
written by barathvajramachandran •
I believe Clustal supports something like this for concatenated alignments. You can provide it an 'index' file, of where the joins between "segments" in your words would be.
Not sure if this is entirely what you're after but sounds similar.