{% extends 'sharedTemplates/base.html' %} {% block title %}MSA {% endblock %} {% block body %}
Information

This panel displays a multiple sequence alignment (MSA) of a selected gene segment across multiple samples.

Each row represents a sample or reference sequence. The alignment uses symbols to highlight differences relative to the reference:

  • No difference
    Ref: A C G T A
    Seg: - - - - -

  • SNP (Single Nucleotide Polymorphism)
    Ref: A C G T A
    Seg: - G - - -

  • Deletion in the segment
    Ref: A C G T A
    Seg: - - * - -

  • Insertion in the segment
    Ref: A C - T A
    Seg: - - G - -

Multiple Sequence Alignment

{% if query_chunks and match_lines %}
                        {% for q_chunk, match_line in zip(query_chunks, match_lines) %}
{{ reference }}{{ q_chunk }}
{{ allele }}{{ match_line }}
                        {% endfor %}
                    
{% else %}

No alignment data available.

{% endif %}
{% endblock %}