Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1004326924

GenInfo (GI) Number: 0000000000

Download Results: 1004326924.PHASTER.zip

gi|00000000|ref|KU159086.1| Klebsiella pneumoniae plasmid pOXAAPSS2, complete sequence. 66284, gc%: 51.15%

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
128.8Kbincomplete402427328-56153 info_outlinePHAGE_Entero_P1_NC_005856(2)52.95%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|KU159086.1| Klebsiella pneumoniae plasmid pOXAAPSS2, complete sequence. 66284, gc%: 51.15%

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 26 CDS

#CDS PositionBLAST HitE-ValueSequence
127328..27341attL0.0Showinfo_outline
2complement(39682..40410)PHAGE_Bacill_phi4B1_NC_028886: site-specific recombinase; -; phage(gi971821285)7.95e-06Showinfo_outline
3complement(40429..40677)hypothetical protein; -0.0Showinfo_outline
4complement(40674..41159)hypothetical protein; -0.0Showinfo_outline
5complement(41735..41983)PHAGE_Vibrio_CTX_NC_015209: RstR; -; phage(gi332672299)7.22e-05Showinfo_outline
6complement(41980..42441)hypothetical protein; -0.0Showinfo_outline
742582..43127hypothetical protein; -0.0Showinfo_outline
8complement(43289..44008)hypothetical protein; -0.0Showinfo_outline
9complement(44005..44589)hypothetical protein; -0.0Showinfo_outline
10complement(44567..44923)hypothetical protein; -0.0Showinfo_outline
1145450..46637RelB antitoxin; -0.0Showinfo_outline
1246656..46928transcriptional regulator; -0.0Showinfo_outline
1346925..47608hypothetical protein; -0.0Showinfo_outline
1447653..47871hypothetical protein; -0.0Showinfo_outline
1547874..48083PHAGE_Burkho_KS14_NC_015273: gp43; -; phage(gi327198312)8.67e-12Showinfo_outline
16complement(48206..49471)PHAGE_Salmon_vB_SosS_Oslo_NC_018279: error-prone lesion bypass DNA polymerase V; -; phage(gi399528790)2.38e-145Showinfo_outline
17complement(49459..49893)PHAGE_Cronob_ENT39118_NC_019934: protein umuD; -; phage(gi431811072)1.97e-30Showinfo_outline
18complement(49986..50318)PHAGE_Lactob_Lj771_NC_010179: MazF-like protein; -; phage(gi163932202)3.34e-14Showinfo_outline
19complement(50320..50577)antitoxin; -0.0Showinfo_outline
20complement(50637..50912)hypothetical protein; -0.0Showinfo_outline
21complement(50909..52117)PROPHAGE_Shewan_MR-1: ISSod3, transposase; -; phage(gi24375070)1.36e-139Showinfo_outline
2252420..53331LysR family transcriptional regulator; -0.0Showinfo_outline
23complement(53633..54430)class D beta-lactamase; -0.0Showinfo_outline
2454649..54924PHAGE_Entero_P1_NC_005856: InsA; -; phage(gi46401643)8.14e-62Showinfo_outline
2554843..55346PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; -; phage(gi557307573)1.15e-118Showinfo_outline
2656153..56166attR0.0Showinfo_outline
Klebsiella pneumoniae plasmid pOXAAPSS2, complete sequence
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 66284 bps
Phages: 1
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Click on a region in the genome above to show details here.
Viewer Options
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