{% include "chlamdb/menu.html" %}
{{ fam }}
{% if object_type == 'pfam' %}
{% elif object_type == 'ko' %}
{% endif %}
{% if no_match %}
{% else %}
Help to interpret the results
Three outputs have been generated:
General: this result contains the description and frequency of the selected {{ object_name }} {{ fam }}, of which KO pathways and KO modules it is part. Additionally, its occurence in the database is reported.
Proteins list: list of occurences of the {{ object_name }}
within the database. {{ all_locus_data|length }} occurences are identified.
The table reports the orthogroup, the organism in which each occurrence has been found, and the locus tag enriched by start and stop position, strand, gene name and product.
Clicking on the Ortohgroup name or locus you will be redirected to further info.
Profiles: Phylogenetic tree annotated with
- the presence of the {{ object_name_singular_or_plural }} of interest within all the genomes of the database (first column)
- the size of the orthogroup(s) in which the reported {{ object_name }} has been clustered.
In red the {{object_name}} with positive hit(s) in the corresponding genome.
In green the discrepencies between orthogroup clustering and {{object_name}} prediction.
Green homologs (same orthogroup) are not positive hit(s) for the considered {{object_name}}.
Variations within orthogroups may be due to the clustering of multi domain proteins or because of erroneous homolog clustering or {{object_name}} prediction.
Description
{% if object_type == 'pfam' %}
External link |
{{ fam }} |
{% elif object_type == 'interpro' %}
External link |
{{ fam }} |
{% elif object_type == 'ko' %}
External link |
{{ fam }} |
{% elif object_type == 'EC' %}
External link |
{{ fam }} |
{% elif object_type == 'amr' %}
Gene |
{{ fam }} |
{% endif %}
{% for key, value in info.items %}
{{key}} |
{{value|safe}} |
{% endfor %}
{% if object_type == 'ko'%}
KO part of {{pathway_data|length }} pathways
{% if pathway_data|length > 0 %}
{% for path in pathway_data %}
{{path|safe}} |
{% endfor %}
{% endif %}
KO part of {{module_data|length }} modules
{% if module_data|length > 0 %}
{% for path in module_data %}
{{path.0|safe}} |
{{path.1}} |
{{path.2}} |
{% endfor %}
{% endif %}
{% endif %}
Occurence in the database
{{ fam }} is associated with {{ all_locus_data|length }} different proteins (see tab "Protein list" and "Profile") |
The {{ all_locus_data|length }} proteins are classified into {{ group_count|length }} different orthogroup(s)
{% for group in group_count %}
- {{group|safe}}
{% endfor %}
|
# |
Orthogroup |
Locus |
Start |
Stop |
S. |
Gene |
Product |
Organism |
{% for values in all_locus_data %}
{{values.0}} |
{{values.1|safe}} |
{{values.2}} |
{{values.4}} |
{{values.5}} |
{{values.6}} |
{{values.7}} |
{{values.8}} |
{{values.9}} |
{% endfor %}
{% endif %}