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 : SM1 | Genbank acc : NC_004996 | Aclame index mge :171

Category to which the Query Phage was assigned : Siphoviridae of Type1 (Cluster 10) (Read more about that category)

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

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Number of sequences analyzed : 54

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	40	lcl\|Aclame:protein:vir:9574\|NCBI_annot:gp40\|genbank:acc:NP_862879;genbank:gi:32469471;genbank:GeneID	HHsearch (proba=100.00%)
Portal	34	lcl\|Aclame:protein:vir:9568\|NCBI_annot:gp34\|genbank:acc:NP_862873;genbank:gi:32469465;genbank:GeneID	HHsearch (proba=100.00%)
TermL	38	lcl\|Aclame:protein:vir:9572\|NCBI_annot:gp38\|genbank:acc:NP_862877;genbank:gi:32469469;genbank:GeneID	Blast (e-value=0)
MTP	46	lcl\|Aclame:protein:vir:9580\|NCBI_annot:unknown\|genbank:acc:NP_862885;genbank:gi:32469421;genbank:Gen	Blast (e-value=1e-105)
Sheath	NOT FOUND
Ad1	42	lcl\|Aclame:protein:vir:9576\|NCBI_annot:gp42\|genbank:acc:NP_862881;genbank:gi:32469473;genbank:GeneID	HHsearch (proba=100.00%)
Hc1	43	lcl\|Aclame:protein:vir:9577\|NCBI_annot:gp43\|genbank:acc:NP_862882;genbank:gi:32469474;genbank:GeneID	HHsearch (proba=100.00%)
Ne1	44	lcl\|Aclame:protein:vir:9578\|NCBI_annot:gp44\|genbank:acc:NP_862883;genbank:gi:32469475;genbank:GeneID	HHsearch (proba=100.00%)
Tc1	45	lcl\|Aclame:protein:vir:9579\|NCBI_annot:gp45\|genbank:acc:NP_862884;genbank:gi:32469476;genbank:GeneID	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):

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:9574 protein:vir:9759 protein:vir:1638	SM1 315.3 r1t	100 % 63 % 58 %
Portal	protein:vir:9568 protein:vir:94742 protein:vir:1634	SM1 phi LC3 r1t	100 % 70 % 70 %
TermL	protein:vir:9572 protein:vir:94734 protein:vir:1636	SM1 phi LC3 r1t	100 % 74 % 73 %
MTP	protein:vir:9580 protein:vir:94739 protein:vir:1644	SM1 phi LC3 r1t	100 % 61 % 61 %
Ad1	protein:vir:9576 protein:vir:94761 protein:vir:1640	SM1 phi LC3 r1t	100 % 75 % 75 %
Hc1	protein:vir:9577 protein:vir:1641 protein:vir:94767	SM1 r1t phi LC3	100 % 66 % 64 %
Ne1	protein:vir:9578 protein:vir:9763 protein:vir:94763	SM1 315.3 phi LC3	100 % 62 % 56 %
Tc1	protein:vir:9579 protein:vir:94768 protein:vir:9764	SM1 phi LC3 315.3	100 % 62 % 62 %