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 : PhiCh1 | Genbank acc : NC_004084 | Aclame index mge :316

Category to which the Query Phage was assigned : Myoviridae of Type1 (Cluster 4) (Read more about that category)

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

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Number of sequences analyzed : 98

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	12	lcl\|Aclame:protein:vir:3158\|NCBI_annot:capsid	HHsearch (proba=100.00%)
Portal	7	lcl\|Aclame:protein:vir:3153\|NCBI_annot:capsid	HHsearch (proba=100.00%)
TermL	3	lcl\|Aclame:protein:vir:3149\|NCBI_annot:unknown\|genbank:acc:NP_665920;genbank:gi:22091106;genbank:Gen	Blast (e-value=0)
MTP	NOT FOUND
Sheath	19	lcl\|Aclame:protein:vir:3165\|NCBI_annot:capsid	HHsearch (proba=100.00%)
Ad1	14	lcl\|Aclame:protein:vir:3160\|NCBI_annot:unknown\|genbank:acc:NP_665931;genbank:gi:22091117;genbank:Gen	HHsearch (proba=100.00%)
Hc1	15	lcl\|Aclame:protein:vir:3161\|NCBI_annot:unknown\|genbank:acc:NP_665932;genbank:gi:22091118;genbank:Gen	HHsearch (proba=100.00%)
Ne1	17	lcl\|Aclame:protein:vir:3163\|NCBI_annot:unknown\|genbank:acc:NP_665934;genbank:gi:22091120;genbank:Gen	HHsearch (proba=100.00%)
Tc1	18	lcl\|Aclame:protein:vir:3164\|NCBI_annot:unknown\|genbank:acc:NP_665935;genbank:gi:22091121;genbank:Gen	HHsearch (proba=100.00%)
Ad2	NOT FOUND
Hc2	NOT FOUND
Tc2	NOT FOUND
Ad3	NOT FOUND
Hc3	NOT FOUND
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
Tc1<->Hc1	3	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:99424 protein:vir:78350 protein:vir:4511	BJ1 B025 V	29 % 17 % 17 %
Portal	protein:vir:99452 protein:vir:4337 protein:vir:100150	BJ1 D3 phi1026b	38 % 19 % 17 %
TermL	protein:vir:99234 protein:vir:102402 protein:vir:80106	DMS3 Pipefish B054	18 % 17 % 17 %
Sheath	protein:vir:78611 protein:vir:3636 protein:vir:106730	BcepNY3 Bcep781 Bcep1	15 % 15 % 14 %
Ad1	protein:vir:81255 protein:vir:101652 protein:vir:7857	BFK20 244 CJW1	19 % 17 % 17 %
Ne1	protein:vir:103841 protein:vir:107851 protein:vir:79225	D3112 BcepMu Phage MP22	23 % 22 % 22 %