Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1114557384

GenInfo (GI) Number: 0000000000

Download Results: 1114557384.PHASTER.zip

gi|00000000|ref|CP018432.1| Klebsiella pneumoniae strain MNCRE78 plasmid pMNCRE78_3, complete 52059, gc%: 48.14%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
122.8Kbincomplete60133124-25955 info_outlinePHAGE_Microc_MaMV_DC_NC_029002(2)47.58%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|CP018432.1| Klebsiella pneumoniae strain MNCRE78 plasmid pMNCRE78_3, complete 52059, gc%: 48.14%

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 15 CDS

#CDS PositionBLAST HitE-ValueSequence
13124..3136attL0.0Showinfo_outline
210367..11053PHAGE_Bacill_Page_NC_022764: lytic tail protein; BTE52_30220; phage(gi571798147)1.56e-20Showinfo_outline
311054..11404conjugal transfer protein TrbM; BTE52_302250.0Showinfo_outline
411446..11820PHAGE_Xantho_vB_XveM_DIBBI_NC_017981: single-stranded DNA-binding protein; BTE52_30230; phage(gi389060431)1.48e-66Showinfo_outline
511839..12204FipA; BTE52_302350.0Showinfo_outline
6complement(12214..12726)PROPHAGE_Xantho_33913: Tn5041 transposase; BTE52_30240; phage(gi21231545)3.23e-14Showinfo_outline
712777..13481PROPHAGE_Brucel_1330: transposase, putative; BTE52_30245; phage(gi23502708)1.98e-53Showinfo_outline
8complement(13372..13633)PROPHAGE_Escher_CFT073: insertion element IS2 transposase InsD; BTE52_30250; phage(gi26249446)4.82e-09Showinfo_outline
9complement(13798..14193)PROPHAGE_Ralsto_GMI1000: ISRSO10-transposase ORFA protein; BTE52_30255; phage(gi17546153)2.06e-57Showinfo_outline
1014561..15217PHAGE_Microc_MaMV_DC_NC_029002: hypothetical protein; BTE52_30260; phage(gi971764756)5.37e-16Showinfo_outline
11complement(15536..16150)PHAGE_Salmon_Fels_2_NC_010463: DNA-invertase; BTE52_30265; phage(gi169936026)4.52e-48Showinfo_outline
1216312..16494hypothetical protein; BTE52_302700.0Showinfo_outline
1316585..17175hypothetical protein; BTE52_302750.0Showinfo_outline
1417312..17884PHAGE_Ralsto_RSM3_NC_011399: hypothetical protein; BTE52_30280; phage(gi209901327)5.91e-26Showinfo_outline
1525955..25967attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 52059 bps
Phages: 1
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Click on a region in the genome above to show details here.
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Click on a sequence to see details.
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