Keys
anna-panchenko opened this issue · comments
Keys are not well defined, i don't think they correspond to exactly 80% ientical or 50% identical columns:
Keys: red - 80% identical, blue - 50% identical columns. X-denotes ambiguous positions in consensus sequence
there are also blue columns with "X" in consensus sequence?
I would need an example to check.
Technically: two A and two L in an alignment of 4 sequence will give you that.
50% conservation, but you do not know whether to put A or L into consensus.
how would you color columns which are more than 80% identical?
they will be red. if we have X in the consensus - this means that the identity can not be more than 50 %.
However, it can be roughly 50% - then we have it colored in blue.