Virfam_CNT_analysis

Results of the Virfam Analysis

on the Neck Module and part of the Head and Tail Proteins

Name of the query : Phage Name : PaP3 | Genbank acc : NC_004466 | Aclame index mge :158

Category to which the Query Phage was assigned : Podoviridae of Type3 (Read more about that Type)

Graphical Summary of the Superfamilies Detected (Help on Superfamily names):

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Number of sequences analyzed : 71

Classification of the Query Phage with respect to other related Phages in Aclame (Query Phage in text box with red border and white background):

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Table of the Head-Neck-Tail Proteins Detected :

Protein Superfamily	Index in Query Genome	Sequence Header	Detection Method
MCP	7	lcl\|Aclame:protein:vir:8843\|NCBI_annot:major	HHsearch (proba=100.00%)
Portal	4	lcl\|Aclame:protein:vir:8846\|NCBI_annot:putative	HHsearch (proba=100.00%)
TermL	3	lcl\|Aclame:protein:vir:8847\|NCBI_annot:terminase\|genbank:acc:NP_775255;genbank:gi:27476053;genbank:G	Blast (e-value=0)
MTP	NOT FOUND
Sheath	NOT FOUND
Ad1	NOT FOUND
Hc1	NOT FOUND
Ne1	NOT FOUND
Tc1	NOT FOUND
Ad2	NOT FOUND
Hc2	NOT FOUND
Tc2	NOT FOUND
Ad3	9	lcl\|Aclame:protein:vir:8841\|NCBI_annot:constituent	HHsearch (proba=100.00%)
Hc3	13	lcl\|Aclame:protein:vir:8837\|NCBI_annot:constituent	HHsearch (proba=100.00%)
Ad4	NOT FOUND

NB : Matches obtained with a HHsearch probability between 70 % and 90 % should be considered with caution.
Check that the canonical intergene below is not violated in that case.

This page has some unexpected intergene distance(s) with respect to those observed in Reference Phages from Aclame (Obs_InterGeneDist > Mean_InterGeneDist+2*Std_Dev) (Help):

Proteins Superfamilies	Observed Intergene Distance	Expected Intergene Distance
Ad3<->Hc3	4	2

Highest Identities of Proteins of the Query Phage with at least 3 Proteins in Aclame Phages :

Protein Superfamily	Corresponding Protein in Aclame	Aclame Phage	Seq. Identity (%)
MCP	protein:vir:8843 protein:vir:96442 protein:vir:103370	PaP3 119X PaP2	100 % 17 % 16 %
Portal	protein:vir:8846 protein:vir:95821 protein:vir:93630	PaP3 N4 Bcep22	100 % 17 % 15 %
TermL	protein:vir:8847 protein:vir:9262 protein:vir:100942	PaP3 ST64T ST104	100 % 35 % 35 %
Ad3	protein:vir:8841 protein:vir:5111 protein:vir:351	PaP3 PBC5 Mx8	100 % 15 % 11 %
Hc3	protein:vir:8837 protein:vir:2625 protein:vir:3529	PaP3 SIO1 APSE-1	100 % 16 % 14 %