Virfam_CNT_anal:NC

Results of the Virfam Analysis

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

Name of the query : Phage Name : RIO-1 | Genbank acc : NC_021300

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 : 56

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	48	lcl\|NC_021300.1_cdsid_YP_008051118.1	HHsearch (proba=100.00%)
Portal	51	lcl\|NC_021300.1_cdsid_YP_008051121.1	HHsearch (proba=100.00%)
TermL	52	lcl\|NC_021300.1_cdsid_YP_008051122.1	Blast (e-value=9e-92)
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	46	lcl\|NC_021300.1_cdsid_YP_008051116.1	HHsearch (proba=100.00%)
Hc3	40	lcl\|NC_021300.1_cdsid_YP_008051110.1	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	6	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:95451 protein:vir:3136 protein:vir:80180	PA11 VpV262 Pf-WMP3	36 % 24 % 16 %
Portal	protein:vir:95449 protein:vir:3139 protein:vir:80165	PA11 VpV262 Pf-WMP3	34 % 26 % 16 %
TermL	protein:vir:95431 protein:vir:2600 protein:vir:3140	PA11 SIO1 VpV262	37 % 36 % 35 %
Ad3	protein:vir:95463 protein:vir:3130 protein:vir:2626	PA11 VpV262 SIO1	28 % 26 % 23 %
Hc3	protein:vir:2625 protein:vir:95475 protein:vir:3133	SIO1 PA11 VpV262	27 % 26 % 24 %