Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1028614411

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|LT216438.1| Klebsiella pneumoniae isolate 117916, gc%: 53.43%

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
137.2Kbintact1503662118-99334 info_outlinePHAGE_Salmon_SJ46_NC_031129(4)55.53%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|LT216438.1| Klebsiella pneumoniae isolate 117916, gc%: 53.43%

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 38 CDS

#CDS PositionBLAST HitE-ValueSequence
2complement(71878..72660)PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; RH201207_p200109; phage(gi764159894)1.80e-06Showinfo_outline
3complement(72660..72992)hypothetical protein; RH201207_p2001100.0Showinfo_outline
4complement(72999..73397)hypothetical protein; RH201207_p2001110.0Showinfo_outline
5complement(73423..73752)hypothetical protein; RH201207_p2001120.0Showinfo_outline
6complement(73780..74088)hypothetical protein; RH201207_p2001130.0Showinfo_outline
7complement(74134..74385)hypothetical protein; RH201207_p2001140.0Showinfo_outline
874993..75223vagC protein; RH201207_p2001150.0Showinfo_outline
975235..75636putative DNA binding protein; RH201207_p2001160.0Showinfo_outline
1075710..76420recombination protein F; RH201207_p2001170.0Showinfo_outline
1176454..76729PHAGE_Entero_P1_NC_005856: InsA; RH201207_p200118; phage(gi46401643)2.42e-57Showinfo_outline
1276774..77151PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; RH201207_p200119; phage(gi557307573)1.34e-82Showinfo_outline
1377313..77735mercuric transport protein; RH201207_p2001200.0Showinfo_outline
1477787..79481putative mercuric reductase; RH201207_p2001210.0Showinfo_outline
1579499..79861mercuric resistance operon coregulator; RH201207_p2001220.0Showinfo_outline
1679858..80094mercuric transport protein; RH201207_p2001230.0Showinfo_outline
1780091..80798diguanylate cyclase/cyclic diguanylate phosphodiesterase; RH201207_p2001240.0Showinfo_outline
1880873..82141PROPHAGE_Brucel_1330: transposase, putative; RH201207_p200125; phage(gi23501616)1.01e-33Showinfo_outline
2082188..82598PROPHAGE_Brucel_1330: transposase, putative; RH201207_p200126; phage(gi23502708)7.58e-38Showinfo_outline
21complement(82709..83569)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; RH201207_p200127; phage(gi100066)5.20e-57Showinfo_outline
22complement(83752..84003)PHAGE_Salmon_SJ46_NC_031129: prohead core protein protease; RH201207_p200128; phage(gi100061)4.13e-06Showinfo_outline
23complement(84269..84628)oxacillinase-carbenicillinase; RH201207_p2001530.0Showinfo_outline
24complement(84758..85093)Beta-lactamase OXA-1 precursor; RH201207_p2001290.0Showinfo_outline
25complement(85313..86017)PROPHAGE_Brucel_1330: transposase, putative; RH201207_p200130; phage(gi23502708)1.98e-53Showinfo_outline
2686090..88987PROPHAGE_Xantho_33913: Tn5041 transposase; RH201207_p200131; phage(gi21231545)3.56e-34Showinfo_outline
2789076..89696PHAGE_Clostr_phiCD27_NC_011398: putative phage site-specific recombinase; RH201207_p200132; phage(gi209901279)3.94e-07Showinfo_outline
2889846..90205hypothetical protein; RH201207_p2001330.0Showinfo_outline
2990619..90735hypothetical protein; RH201207_p2001340.0Showinfo_outline
30complement(90862..91221)Uncharacterized protein conserved in bacteria; RH201207_p2001350.0Showinfo_outline
31complement(91393..91605)PHAGE_Entero_HK022_NC_002166: IS903 transposase; RH201207_p200136; phage(gi9634149)2.33e-15Showinfo_outline
3291725..92909PROPHAGE_Shewan_MR-1: transposase, putative; RH201207_p200137; phage(gi24373689)2.31e-142Showinfo_outline
3393186..94505PHAGE_Staphy_phiPV83_NC_002486: transposase; RH201207_p200138; phage(gi9635722)7.29e-29Showinfo_outline
34complement(94755..95636)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; RH201207_p200139; phage(gi100066)2.88e-94Showinfo_outline
35complement(95688..95927)hypothetical protein; RH201207_p2001400.0Showinfo_outline
36complement(95924..96703)PHAGE_Entero_fiAA91_ss_NC_022750: IS21 transposition protein; RH201207_p200141; phage(gi557307613)8.13e-78Showinfo_outline
37complement(96700..97725)PHAGE_Entero_fiAA91_ss_NC_022750: IS21 transposase; RH201207_p200142; phage(gi557307612)2.30e-44Showinfo_outline
38complement(97832..99334)PROPHAGE_Xantho_306: Tn5044 transposase; RH201207_p200143; phage(gi21243163)0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 117916 bps
Phages: 1
Click on a region in the genome above to show details here.
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Click on a sequence to see details.
Portal Protein
Coat Protein
Tail Shaft
Attachment Site
Phage-like Protein
Hypotheical Protein
Fiber Protein
Plate Protein

Download data as .txt file: png_input file_download