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 : Berlin | Genbank acc : NC_008694 | Aclame index mge :1516

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 : 45

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	30	lcl\|Aclame:protein:vir:94576\|NCBI_annot:Major	HHsearch (proba=100.00%)
Portal	28	lcl\|Aclame:protein:vir:94572\|NCBI_annot:Head-to-tail	HHsearch (proba=100.00%)
TermL	42	lcl\|Aclame:protein:vir:94555\|NCBI_annot:DNA	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	31	lcl\|Aclame:protein:vir:94565\|NCBI_annot:Tubular	HHsearch (proba=100.00%)
Hc3	32	lcl\|Aclame:protein:vir:94583\|NCBI_annot:Tubular	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):

No unsual intergene distance were detected.

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:94576 protein:vir:1541 protein:vir:3364	Berlin phiYeO3-12 T3	100 % 80 % 79 %
Portal	protein:vir:94572 protein:vir:3361 protein:vir:1538	Berlin T3 phiYeO3-12	100 % 82 % 82 %
TermL	protein:vir:94555 protein:vir:10462 protein:vir:3376	Berlin phiA1122 T3	100 % 80 % 80 %
Ad3	protein:vir:94565 protein:vir:3365 protein:vir:1542	Berlin T3 phiYeO3-12	100 % 74 % 74 %
Hc3	protein:vir:94583 protein:vir:10452 protein:vir:2203	Berlin phiA1122 T7	100 % 65 % 65 %