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 : D3 | Genbank acc : NC_002484 | Aclame index mge :93

Category to which the Query Phage was assigned : Siphoviridae of Type1 (Cluster 3) (Read more about that category)

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

Click on the image to download it as png (download in pdf or svg format)

ERROR_IN_GENERATING_GENECONTEXT_FIGURE. Contact Webmaster.

Number of sequences analyzed : 95

Classification of the Query Phage with respect to other related Phages in Aclame (Query Phage in text box with red border and white background):

Click on the image to download it as png (download in pdf or svg format)

ERROR_IN_GENERATING_TREE_FIGURE. Contact Webmaster.

Table of the Head-Neck-Tail Proteins Detected :

Protein Superfamily	Index in Query Genome	Sequence Header	Detection Method
MCP	6	lcl\|Aclame:protein:vir:4339\|NCBI_annot:major	HHsearch (proba=100.00%)
Portal	4	lcl\|Aclame:protein:vir:4337\|NCBI_annot:portal	HHsearch (proba=100.00%)
TermL	2	lcl\|Aclame:protein:vir:4335\|NCBI_annot:terminase\|genbank:acc:NP_061498;genbank:gi:9635588;genbank:Ge	Blast (e-value=0)
MTP	16	lcl\|Aclame:protein:vir:4349\|NCBI_annot:Orf15\|genbank:acc:NP_061512;genbank:gi:9635608;genbank:GeneID	Blast (e-value=1e-100)
Sheath	NOT FOUND
Ad1	9	lcl\|Aclame:protein:vir:4342\|NCBI_annot:Orf9\|genbank:acc:NP_061505;genbank:gi:9635593;genbank:GeneID:	HHsearch (proba=100.00%)
Hc1	10	lcl\|Aclame:protein:vir:4343\|NCBI_annot:Orf10\|genbank:acc:NP_061506;genbank:gi:9635594;genbank:GeneID	HHsearch (proba=100.00%)
Ne1	14	lcl\|Aclame:protein:vir:4347\|NCBI_annot:Orf14\|genbank:acc:NP_061510;genbank:gi:9635606;genbank:GeneID	HHsearch (proba=100.00%)
Tc1	15	lcl\|Aclame:protein:vir:4348\|NCBI_annot:Orf15\|genbank:acc:NP_061511;genbank:gi:9635607;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<->Hc1	5	3
Ne1<->Hc1	4	2
Tc1<->Ad1	6	4
Ne1<->Ad1	5	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:4339 protein:vir:100135 protein:vir:97053	D3 phi1026b OP1	100 % 60 % 48 %
Portal	protein:vir:4337 protein:vir:100150 protein:vir:81072	D3 phi1026b Xop411	100 % 46 % 39 %
TermL	protein:vir:4335 protein:vir:481 protein:vir:4508	D3 P27 V	100 % 48 % 47 %
MTP	protein:vir:4349 protein:vir:1893 protein:vir:100241	D3 HK022 Bcep176	100 % 63 % 24 %
Ad1	protein:vir:4342 protein:vir:100245 protein:vir:81069	D3 Bcep176 Xop411	100 % 24 % 24 %
Hc1	protein:vir:4343 protein:vir:1890 protein:vir:81177	D3 HK022 Geobacillus virus E2	100 % 40 % 28 %
Ne1	protein:vir:4347 protein:vir:1891 protein:vir:105089	D3 HK022 phiKO2	100 % 44 % 28 %
Tc1	protein:vir:4348 protein:vir:1892 protein:vir:100242	D3 HK022 Bcep176	100 % 58 % 24 %