Submission Results

Sequence Name: Not Available

GenBank Accession Number: NC_020844.1

Download Results: NC_020844.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Salicola phage CGphi29 genomic sequence. 40695, gc%: 56.42%

Download summary as .txt file:summary.txt file_download

Total:1 prophage regions have been identified, of which 1 regions are intact, 0 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
140.6Kbintact150641-40691 info_outlinePHAGE_Salico_CGphi29_NC_020844(64)56.42%Show info_outline
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)
Region: The number assigned to the region.
Region Length: The length of the sequence of that region (in bp).
Completeness: A prediction of whether the region contains a intact or incomplete prophage based on the above criteria.
Score: The score of the region based on the above criteria.
# Total Proteins: The number of ORFs present in the region.
Region Position: The start and end positions of the region on the bacterial chromosome.
Most Common Phage: The phage(s) with the highest number of proteins most similar to those in the region.
GC %: The percentage of GC nucleotides of the region.

Criteria for scoring prophage regions (as intact, questionable, or incomplete):
Method 1:

  1. If the number of certain phage organism in this table is more than or equal to 100% of the total number of CDS of the region, the region is marked with total score 150. If less than 100%, method 2 and 3 will be used.
Method 2:
  1. If the number of certain phage organism in this table is more than 50% of the total number of CDS of the region, that phage organism is considered as the major potential phage for that region; the percentage of the total number of that phage organism in this table in the total number of proteins of the region is calculated and then multipled by 100; the percentage of the length of that phage organism in this table in the length of the region is calculated and then multipled by 50 (phage head's encapsulation capability is considered).
Method 3:
  1. If any of the specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin') are present, the score will be increased by 10 for each keyword found.
  2. If the size of the region is greater than 30 Kb, the score will be increased by 10.
  3. If there are at least 40 proteins in the region, the score will be increased by 10.
  4. If all of the phage-related proteins and hypothetical proteins constitute more than 70% of the total number of proteins in the region, the score will be increased by 10.
Compared the total score of method 2 with the total score of method 3, the bigger one is chosen as the total score of the region.
If the region's total score is less than 70, it is marked as incomplete; if between 70 to 90, it is marked as questionable; if greater than 90, it is marked as intact.

gi|00000000|ref|NC_020844.1| Salicola phage CGphi29 genomic sequence. 40695, gc%: 56.42%

Download details as .txt file:detail.txt file_download

DNA Helicase
Hypothetical protein
Phage-like protein
Terminase
Portal protein
Head protein
Tail protein

intact

Region 1, total 64 CDS

#CDS PositionBLAST HitE-ValueSequence
11..934PP_00001;helicase;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
2934..1881PP_00002;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
31968..2954PP_00003;DNA methylase;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
42998..3495PP_00004;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208448.12e-117Show info_outline
53498..3893PP_00005;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.19e-92Show info_outline
63893..4156PP_00006;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.2e-58Show info_outline
74153..4827PP_00007;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208446.58e-165Show info_outline
84954..5139PP_00008;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.96e-39Show info_outline
95132..7126PP_00009;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
107369..7668PP_00010;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.49e-68Show info_outline
117764..7937PP_00011;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.84e-34Show info_outline
127892..8239PP_00012;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.08e-81Show info_outline
139047..9448PP_00013;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.27e-95Show info_outline
149423..10772PP_00014;terminase large subunit;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
1510772..12139PP_00015;portal protein;phage;PHAGE_Pseudo_PaMx28_NC_0289316.58e-45Show info_outline
1612180..12926PP_00016;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.11e-180Show info_outline
1713033..14187PP_00017;putative coat protein;phage;PHAGE_Rhizob_vB_RglS_P106B_NC_0235661.62e-140Show info_outline
1814395..15324PP_00018;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
1915290..15490PP_00019;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.89e-39Show info_outline
2015822..16001PP_00020;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.48e-36Show info_outline
2115977..16483PP_00021;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.73e-120Show info_outline
2216483..16845PP_00022;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208445.67e-81Show info_outline
2316849..17880PP_00023;putative head morphogenesis protein;phage;PHAGE_Rhizob_vB_RglS_P106B_NC_0235667.45e-89Show info_outline
2417822..18292PP_00024;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.24e-109Show info_outline
2518289..18516PP_00025;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.31e-49Show info_outline
2618513..18737PP_00026;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208444.22e-48Show info_outline
2718734..19129PP_00027;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.62e-93Show info_outline
2819183..19482PP_00028;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.71e-68Show info_outline
2919479..19772PP_00029;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208449.62e-68Show info_outline
3019754..19963PP_00030;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.61e-44Show info_outline
3120147..20602PP_00031;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.03e-106Show info_outline
3220616..20963PP_00032;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208446.96e-74Show info_outline
3321057..21473PP_00033;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.43e-98Show info_outline
3421500..21928PP_00034;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208447.86e-106Show info_outline
3521984..26240PP_00035;tail tape measure protein;phage;PHAGE_Vibrio_pYD38_B_NC_0215613.14e-50Show info_outline
3626237..27136PP_00036;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
3727137..28825PP_00037;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
3828829..29641PP_00038;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
3929644..30711PP_00039;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
4030723..31124PP_00040;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208446.13e-94Show info_outline
4131136..31387PP_00041;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208448.53e-58Show info_outline
4231544..32107PP_00042;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.74e-136Show info_outline
4332326..32514PP_00043;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.65e-35Show info_outline
4432504..32719PP_00044;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.66e-45Show info_outline
4532649..32819PP_00045;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.19e-36Show info_outline
4632926..33105PP_00046;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.71e-33Show info_outline
4733199..33462PP_00047;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.45e-58Show info_outline
4833459..33674PP_00048;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208448.82e-47Show info_outline
4933674..34516PP_00049;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline
5034547..34978PP_00050;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208448.77e-105Show info_outline
5134959..35282PP_00051;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208444.18e-73Show info_outline
5235279..35440PP_00052;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.0e-32Show info_outline
5335488..35694PP_00053;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.79e-42Show info_outline
5435804..36007PP_00054;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.57e-44Show info_outline
5536011..36223PP_00055;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208442.89e-45Show info_outline
5636220..36678PP_00056;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.44e-112Show info_outline
5736675..36932PP_00057;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208449.59e-58Show info_outline
5836929..37480PP_00058;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.53e-136Show info_outline
5937490..37672PP_00059;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208445.37e-38Show info_outline
6037665..38360PP_00060;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208443.99e-173Show info_outline
6138350..38640PP_00061;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208445.52e-65Show info_outline
6238640..38978PP_00062;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208441.52e-77Show info_outline
6339049..39471PP_00063;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208444.91e-101Show info_outline
6439513..40691PP_00064;hypothetical protein;phage;PHAGE_Salico_CGphi29_NC_0208440.0Show info_outline

gi|00000000|ref|NC_020844.1| Salicola phage CGphi29 genomic sequence. 40695, gc%: 56.42%

Download details as .txt file:detail.txt file_download

Bacterial, total 0 CDS

#CDS PositionBLAST HitE-ValueSequence

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Click on a region or gene to view details

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