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 : Corndog | Genbank acc : NC_004685 | Aclame index mge :154

Category to which the Query Phage was assigned : Siphoviridae 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 : 122

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	41	lcl\|Aclame:protein:vir:8324\|NCBI_annot:gp41\|genbank:acc:NP_817892;genbank:gi:29566325;genbank:GeneID	HHsearch (proba=100.00%)
Portal	34	lcl\|Aclame:protein:vir:8317\|NCBI_annot:gp34\|genbank:acc:NP_817885;genbank:gi:29566318;genbank:GeneID	HHsearch (proba=100.00%)
TermL	32	lcl\|Aclame:protein:vir:8315\|NCBI_annot:gp32\|genbank:acc:NP_817883;genbank:gi:29566316;genbank:GeneID	Blast (e-value=0)
MTP	49	lcl\|Aclame:protein:vir:8332\|NCBI_annot:gp49\|genbank:acc:NP_817900;genbank:gi:29566333;genbank:GeneID	Blast (e-value=1e-159)
Sheath	NOT FOUND
Ad1	43	lcl\|Aclame:protein:vir:8326\|NCBI_annot:gp43\|genbank:acc:NP_817894;genbank:gi:29566327;genbank:GeneID	HHsearch (proba=100.00%)
Hc1	45	lcl\|Aclame:protein:vir:8328\|NCBI_annot:gp45\|genbank:acc:NP_817896;genbank:gi:29566329;genbank:GeneID	HHsearch (proba=100.00%)
Ne1	47	lcl\|Aclame:protein:vir:8330\|NCBI_annot:gp47\|genbank:acc:NP_817898;genbank:gi:29566331;genbank:GeneID	HHsearch (proba=100.00%)
Tc1	48	lcl\|Aclame:protein:vir:8331\|NCBI_annot:gp48\|genbank:acc:NP_817899;genbank:gi:29566332;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):

Proteins Superfamilies	Observed Intergene Distance	Expected Intergene Distance
Tc1<->Ad1	5	4
Ne1<->Ad1	4	3

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:8324 protein:vir:1084 protein:vir:101607	Corndog bIL309 11b	100 % 16 % 15 %
Portal	protein:vir:8317 protein:vir:6240 protein:vir:1884	Corndog phi-BT1 HK022	99 % 21 % 21 %
TermL	protein:vir:8315 protein:vir:2499 protein:vir:99915	Corndog TM4 Halo	100 % 40 % 35 %
MTP	protein:vir:8332 protein:vir:102610 protein:vir:105827	Corndog Llij PMC	100 % 47 % 47 %
Ad1	protein:vir:8326 protein:vir:8104 protein:vir:8430	Corndog Che9c Omega	100 % 40 % 39 %
Hc1	protein:vir:8328 protein:vir:8431 protein:vir:8105	Corndog Omega Che9c	100 % 40 % 34 %
Ne1	protein:vir:8330 protein:vir:8432 protein:vir:7993	Corndog Omega Che8	100 % 33 % 33 %
Tc1	protein:vir:8331 protein:vir:8107 protein:vir:102609	Corndog Che9c Llij	100 % 35 % 27 %