Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1093006983

GenInfo (GI) Number: 0000000000

Download Results: 1093006983.PHASTER.zip

gi|00000000|ref|CP011839.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-NDM, complete 90103, gc%: 53.53%

Download summary as .txt file: summary.txt file_download

Total: 2 prophage regions have been identified, of which 1 regions are intact, 0 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
151.1Kbintact1003119582-70772 info_outlinePHAGE_Salmon_SJ46_NC_031129(6)52.83%Show info_outline
229Kbquestionable801655904-85002 info_outlinePHAGE_Staphy_SPbeta_like_NC_029119(3)52.89%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|CP011839.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-NDM, complete 90103, gc%: 53.53%

Download details as .txt file: detail.txt file_download

Hits against Virus and Prophage Database
Hits against Bacterial Database or GenBank File

Region 1, total 37 CDS

#CDS PositionBLAST HitE-ValueSequence
119582..19595attL0.0Showinfo_outline
220521..20534attL0.0Showinfo_outline
326468..27244PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; ACG94_p00205; phage(gi764159894)5.08e-08Showinfo_outline
4complement(27302..27559)hypothetical protein; ACG94_p002100.0Showinfo_outline
528327..29193PHAGE_Burkho_KS14_NC_015273: gp37; ACG94_p00215; phage(gi327198306)1.71e-17Showinfo_outline
6complement(29370..29639)hypothetical protein; ACG94_p002200.0Showinfo_outline
730054..31259PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_p00225; phage(gi100009)0.0Showinfo_outline
831259..32233PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_p00230; phage(gi100010)1.82e-116Showinfo_outline
9complement(32315..33586)PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; ACG94_p00235; phage(gi431811050)0.0Showinfo_outline
10complement(33586..34017)PHAGE_Cronob_ENT39118_NC_019934: protein umuD; ACG94_p00240; phage(gi431811072)5.32e-34Showinfo_outline
1134175..34426hypothetical protein; ACG94_p002450.0Showinfo_outline
1234426..35910PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; ACG94_p00250; phage(gi100001)4.60e-37Showinfo_outline
1336062..36337PHAGE_Entero_P1_NC_005856: InsA; ACG94_p00255; phage(gi46401643)1.90e-60Showinfo_outline
1436256..36759PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; ACG94_p00260; phage(gi557307573)4.57e-109Showinfo_outline
1536761..36774attL0.0Showinfo_outline
1637350..37649hypothetical protein; ACG94_p002700.0Showinfo_outline
1737962..38273PHAGE_Entero_HK022_NC_002166: IS903 transposase; ACG94_p00275; phage(gi9634149)5.10e-48Showinfo_outline
18complement(38270..38974)PROPHAGE_Xantho_33913: Tn5041 transposase; ACG94_p00280; phage(gi21231545)4.31e-31Showinfo_outline
19complement(40633..41337)PROPHAGE_Brucel_1330: transposase, putative; ACG94_p00295; phage(gi23502708)1.16e-53Showinfo_outline
2041362..42612PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_p00300; phage(gi100067)3.77e-53Showinfo_outline
2142852..43493lactamase; ACG94_p003050.0Showinfo_outline
2243660..43935PHAGE_Entero_P1_NC_005856: InsA; ACG94_p00310; phage(gi46401643)2.42e-57Showinfo_outline
2343854..44357PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; ACG94_p00315; phage(gi557307573)9.15e-106Showinfo_outline
2444359..44372attR0.0Showinfo_outline
2544997..45905PHAGE_Escher_ECML_117_NC_025441: putative 3-oxoacyl-(acyl-carrier-protein) reductase; ACG94_p00320; phage(gi725950210)1.10e-06Showinfo_outline
26complement(45997..46641)PHAGE_Microc_MaMV_DC_NC_029002: hypothetical protein; ACG94_p00325; phage(gi971764756)1.18e-17Showinfo_outline
27complement(46794..49811)PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_p00330; phage(gi21243163)3.86e-94Showinfo_outline
2851043..51056attR0.0Showinfo_outline
29complement(51269..51559)PHAGE_Entero_vB_KleM_RaK2_NC_019526: hypothetical protein; ACG94_p00340; phage(gi422936994)2.35e-10Showinfo_outline
30complement(51478..51708)hypothetical protein; ACG94_p003450.0Showinfo_outline
3151753..52082dihydroorotate dehydrogenase; ACG94_p003500.0Showinfo_outline
3252087..53118twin-arginine translocation (TAT) pathway signal sequence domain protein; ACG94_p003550.0Showinfo_outline
33complement(53129..53767)N-(5'-phosphoribosyl)anthranilate isomerase; ACG94_p003600.0Showinfo_outline
34complement(53772..54137)bleomycin resistance protein; ACG94_p003650.0Showinfo_outline
35complement(54141..54953)beta-lactamase; ACG94_p003700.0Showinfo_outline
3655161..55865PROPHAGE_Brucel_1330: transposase, putative; ACG94_p00375; phage(gi23502708)1.98e-53Showinfo_outline
3770772..70785attR0.0Showinfo_outline

Region 2, total 22 CDS

#CDS PositionBLAST HitE-ValueSequence
155904..55917attL0.0Showinfo_outline
2complement(66409..67113)PROPHAGE_Brucel_1330: transposase, putative; ACG94_p00440; phage(gi23502708)1.98e-53Showinfo_outline
367163..67176attR0.0Showinfo_outline
467286..67298attL0.0Showinfo_outline
567345..67524transcriptional regulator; ACG94_p004500.0Showinfo_outline
6complement(67483..68496)PHAGE_Mycoba_Butters_NC_021061: integrase; ACG94_p00455; phage(gi479336499)2.26e-12Showinfo_outline
768958..69530PHAGE_Staphy_SPbeta_like_NC_029119: bifunctional AAC/APH; ACG94_p00460; phage(gi985761240)9.12e-16Showinfo_outline
869941..70720hypothetical protein; ACG94_p004650.0Showinfo_outline
970943..72109transposase; ACG94_p004750.0Showinfo_outline
10complement(72070..72264)hypothetical protein; ACG94_p004800.0Showinfo_outline
11complement(72369..73001)chloramphenicol acetyltransferase; ACG94_p004850.0Showinfo_outline
1273589..73602attL0.0Showinfo_outline
13complement(73641..74345)PROPHAGE_Brucel_1330: transposase, putative; ACG94_p00495; phage(gi23502708)1.83e-53Showinfo_outline
1474584..74835PHAGE_Salmon_SJ46_NC_031129: prohead core protein protease; ACG94_p00505; phage(gi100061)4.13e-06Showinfo_outline
1575018..75878PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_p00510; phage(gi100066)5.20e-57Showinfo_outline
16complement(76361..76555)PROPHAGE_Ralsto_GMI1000: ISRSO10-transposase ORFA protein; ACG94_p00520; phage(gi17546153)2.76e-29Showinfo_outline
17complement(76565..76756)PROPHAGE_Escher_CFT073: transposase insC; ACG94_p00525; phage(gi26250372)1.46e-22Showinfo_outline
1877124..77780PHAGE_Microc_MaMV_DC_NC_029002: hypothetical protein; ACG94_p00530; phage(gi971764756)5.37e-16Showinfo_outline
19complement(78560..79951)hypothetical protein; ACG94_p005400.0Showinfo_outline
20complement(79988..80560)PHAGE_Ralsto_RSM3_NC_011399: hypothetical protein; ACG94_p00545; phage(gi209901327)5.91e-26Showinfo_outline
2183558..83571attR0.0Showinfo_outline
2285002..85014attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 90103 bps
Phages: 2
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Lysis
Terminase
Portal Protein
Protease
Coat Protein
Tail Shaft
Attachment Site
Integrase
Phage-like Protein
Hypotheical Protein
Other
Transposase
Fiber Protein
Plate Protein
tRNA

Download data as .txt file: png_input file_download