Submission Results

Sequence Name: Not Available

GenBank Accession Number: KY065503

Download Results: KY065503.PHASTEST.zip

gi|00000000|ref|NC_000000| Streptococcus phage IPP67, complete genome. 33607, gc%: 40.80%

Download summary as .txt file:summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
133.6Kbquestionable90541-33607 info_outlinePHAGE_Strept_SM1_NC_004996(25)40.80%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|KY065503.1| Streptococcus phage IPP67, complete genome. 33607, gc%: 40.80%

Download details as .txt file:detail.txt file_download

Integrase
Phage-like protein
Hypothetical protein
Repressor
Regulatory protein
Portal protein
Head protein
Tail protein
Holin

questionable

Region 1, total 52 CDS

#CDS PositionBLAST HitE-ValueSequence
11..1149PP_00001;integrase;phage;PHAGE_Strept_SpSL1_NC_0273960.0Show info_outline
21321..2235PP_00002;gp2;phage;PHAGE_Strept_SM1_NC_0049962.5e-58Show info_outline
32247..2630PP_00003;DUF955 domain protein;phage;PHAGE_Strept_phiARI0923_NC_0309468.99e-85Show info_outline
42643..3008PP_00004;hypothetical protein;phage;PHAGE_Strept_phiARI0923_NC_0309461.15e-70Show info_outline
53294..3440PP_00005;gp5;phage;PHAGE_Strept_SM1_NC_0049967.76e-07Show info_outline
63433..3636PP_00006;hypothetical protein;phage;PHAGE_Strept_phiARI0923_NC_0309468.07e-34Show info_outline
73648..3782PP_00007;hypothetical protein;phage;PHAGE_Strept_phi3396_NC_0090184.73e-19Show info_outline
83779..4492PP_00008;hypothetical protein;phage;PHAGE_Strept_PH10_NC_0127569.16e-173Show info_outline
94504..4761PP_00009;hypothetical protein;phage;PHAGE_Strept_SpSL1_NC_0273962.87e-56Show info_outline
104847..5167PP_00010;hypothetical protein;phage;PHAGE_Strept_phiARI0923_NC_0309464.07e-72Show info_outline
115183..5482PP_00011;hypothetical protein;phage;PHAGE_Strept_phiARI0923_NC_0309461.22e-58Show info_outline
125473..6261PP_00012;DnaD;phage;PHAGE_Strept_SpSL1_NC_0273961.13e-166Show info_outline
136249..6407PP_00013;hypothetical protein;phage;PHAGE_Strept_SpSL1_NC_0273961.42e-21Show info_outline
146401..7171PP_00014;hypothetical protein;phage;PHAGE_Strept_phiARI0131_2_NC_0319410.0Show info_outline
157186..7380PP_00015;hypothetical protein;phage;PHAGE_Strept_PH10_NC_0127563.51e-24Show info_outline
167380..7607PP_00016;hypothetical protein;phage;PHAGE_Strept_SpSL1_NC_0273961.07e-30Show info_outline
177600..7704PP_00017;Phage protein;phage;PHAGE_Strept_IC1_NC_0243706.25e-07Show info_outline
187734..7898PP_00018;hypothetical protein;phage;PHAGE_Strept_phiARI0131_2_NC_0319419.35e-32Show info_outline
198069..8386PP_00020;hypothetical protein;phage;PHAGE_Strept_phiARI0131_2_NC_0319411.53e-71Show info_outline
208388..8897PP_00021;DUF1642 domain protein;phage;PHAGE_Strept_phiARI0131_2_NC_0319413.41e-119Show info_outline
218890..9480PP_00022;DUF1642 domain protein;phage;PHAGE_Strept_phiARI0131_2_NC_0319416.93e-68Show info_outline
229480..9641PP_00023;Phage protein;phage;PHAGE_Strept_IC1_NC_0243705.66e-20Show info_outline
239638..9772PP_00024;hypothetical protein;phage;PHAGE_Strept_EJ_1_NC_0052941.88e-24Show info_outline
249785..10174PP_00025;YopX domain protein;phage;PHAGE_Strept_phiARI0468_1_NC_0319293.77e-83Show info_outline
2510174..10410PP_00026;hypothetical protein;phage;PHAGE_Strept_MM1_NC_0030501.53e-48Show info_outline
2610403..10579PP_00027;hypothetical protein;phage;PHAGE_Strept_Sfi19_NC_0008715.36e-06Show info_outline
2710572..10802PP_00028;repressor protein CI;phage;PHAGE_Erwini_vB_EhrS_59_NC_0481981.54e-05Show info_outline
2810875..11303PP_00029;ArpU late transcriptional regulator;phage;PHAGE_Strept_9874_NC_0310233.72e-39Show info_outline
2911593..12159PP_00030;site-specific recombinase;phage;PHAGE_Strept_315.1_NC_0045845.21e-53Show info_outline
3012393..12737PP_00031;gp33;phage;PHAGE_Strept_SM1_NC_0049961.04e-63Show info_outline
3112875..14179PP_00032;putative portal protein;phage;PHAGE_Lactoc_63301_NC_0310170.0Show info_outline
3214133..15524PP_00033;gp35;phage;PHAGE_Strept_SM1_NC_0049961.76e-103Show info_outline
3315806..16036PP_00035;hypothetical protein;phage;PHAGE_Entero_phiFL4A_NC_0136445.01e-05Show info_outline
3416087..17499PP_00036;gp38;phage;PHAGE_Strept_SM1_NC_0049960.0Show info_outline
3517581..18045PP_00037;hypothetical protein;phage;PHAGE_Strept_315.3_NC_0045866.79e-52Show info_outline
3618051..18950PP_00038;capsid protein;phage;PHAGE_Strept_Str_PAP_1_NC_0286663.25e-161Show info_outline
3718956..19168PP_00039;gp41;phage;PHAGE_Strept_SM1_NC_0049964.6e-10Show info_outline
3819172..19612PP_00040;gp42;phage;PHAGE_Strept_SM1_NC_0049965.52e-60Show info_outline
3919557..19895PP_00041;gp43;phage;PHAGE_Strept_SM1_NC_0049962.44e-54Show info_outline
4019879..20124PP_00042;hypothetical protein;phage;PHAGE_Strept_315.3_NC_0045862.34e-18Show info_outline
4120121..20456PP_00043;gp45;phage;PHAGE_Strept_SM1_NC_0049965.96e-51Show info_outline
4220472..21080PP_00044;major tail protein;phage;PHAGE_Lactoc_50101_NC_0310407.47e-82Show info_outline
4321086..21361PP_00045;hypothetical protein;phage;PHAGE_Strept_315.3_NC_0045861.5e-19Show info_outline
4421373..21759PP_00046;hypothetical protein;phage;PHAGE_Strept_SM1_NC_0049969.2e-51Show info_outline
4521759..24224PP_00047;PblA;phage;PHAGE_Strept_SM1_NC_0049960.0Show info_outline
4624224..24922PP_00048;distal tail protein;phage;PHAGE_Lactob_PLE2_NC_0310361.41e-08Show info_outline
4724919..31236PP_00049;peptidase_S74 domain protein;phage;PHAGE_Strept_phiARI0468_1_NC_0319290.0Show info_outline
4831331..31534PP_00050;Phage protein;phage;PHAGE_Strept_IC1_NC_0243704.14e-40Show info_outline
4931537..31887PP_00051;hypothetical protein;phage;PHAGE_Strept_phiARI0468_1_NC_0319296.34e-83Show info_outline
5031896..32312PP_00052;holin_4 domain protein;phage;PHAGE_Strept_phiARI0923_NC_0309465.36e-93Show info_outline
5132316..32651PP_00053;putative holin 2;phage;PHAGE_Strept_MM1_NC_0030506.57e-73Show info_outline
5232651..33607PP_00054;amidase_2 domain protein;phage;PHAGE_Strept_phiARI0131_1_NC_0319010.0Show info_outline

gi|00000000|ref|KY065503.1| Streptococcus phage IPP67, complete genome. 33607, gc%: 40.80%

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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