Submission Results

Sequence Name: Not Available

GenBank Accession Number: UFYU01000002.1

GenInfo (GI) Number: 0000000000

Download Results: UFYU01000002.1.PHASTER.zip

gi|00000000|ref|UFYU01000002.1| Enterococcus gallinarum strain NCTC12359 genome assembly, contig: 1941722, gc%: 39.27%

Download summary as .txt file: summary.txt file_download

Total: 3 prophage regions have been identified, of which 1 regions are intact, 2 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
151.8Kbintact15054273859-325755 info_outlinePHAGE_Entero_phiFL1A_NC_013646(10)37.14%Show info_outline
210.5Kbincomplete30101433972-1444544 info_outlinePHAGE_Prochl_P_SSM2_NC_006883(4)43.19%Show info_outline
312.1Kbincomplete20281897244-1909346 info_outlinePHAGE_Entero_phiFL1A_NC_013646(3)36.74%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|UFYU01000002.1| Enterococcus gallinarum strain NCTC12359 genome assembly, contig: 1941722, gc%: 39.27%

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 61 CDS

#CDS PositionBLAST HitE-ValueSequence
1273859..273871attL0.0Showinfo_outline
2279178..279191attL0.0Showinfo_outline
3complement(279191..280348)PROPHAGE_Oceano_HTE831: integrase; NCTC12359_00268; phage(gi23097608)4.14e-96Showinfo_outline
4complement(280356..280673)Uncharacterised protein; NCTC12359_002690.0Showinfo_outline
5complement(280712..281143)PHAGE_Strept_SM1_NC_004996: gp3; NCTC12359_00270; phage(gi32469434)1.62e-08Showinfo_outline
6complement(281153..281503)PHAGE_Strept_phiARI0746_NC_031907: hypothetical protein; NCTC12359_00271; phage(gi100039)3.64e-30Showinfo_outline
7281809..282000PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_00272; phage(gi281416329)2.85e-10Showinfo_outline
8282000..282281Uncharacterised protein; NCTC12359_002730.0Showinfo_outline
9282292..282486Uncharacterised protein; NCTC12359_002740.0Showinfo_outline
10282492..282674Uncharacterised protein; NCTC12359_002750.0Showinfo_outline
11complement(282658..282924)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_00276; phage(gi281416328)1.69e-08Showinfo_outline
12283010..283225Uncharacterised protein; NCTC12359_002770.0Showinfo_outline
13283270..283677PHAGE_Strept_phiARI0746_NC_031907: hypothetical protein; NCTC12359_00278; phage(gi100026)6.07e-28Showinfo_outline
14283690..284433PHAGE_Strept_phiBHN167_NC_022791: phage protein; NCTC12359_00279; phage(gi557745663)2.70e-60Showinfo_outline
15284514..284852PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_00280; phage(gi281416336)2.48e-10Showinfo_outline
16284849..284944Uncharacterised protein; NCTC12359_002810.0Showinfo_outline
17284934..285878PHAGE_Entero_phiFL1A_NC_013646: endonuclease YqaJ superfamily; NCTC12359_00282; phage(gi281416339)1.45e-175Showinfo_outline
18285880..286821PHAGE_Entero_phiFL1A_NC_013646: RecT family protein; NCTC12359_00283; phage(gi281416340)1.08e-124Showinfo_outline
19286864..287673PHAGE_Entero_phiFL1A_NC_013646: recombinase; NCTC12359_00284; phage(gi281416341)3.44e-89Showinfo_outline
20287693..288535PHAGE_Lactob_iA2_NC_028830: DNA replication protein; NCTC12359_00285; phage(gi971747669)3.24e-36Showinfo_outline
21288589..288954PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_00286; phage(gi281416344)6.04e-06Showinfo_outline
22288955..289107Uncharacterised protein; NCTC12359_002870.0Showinfo_outline
23289136..289351PHAGE_Entero_IMEEF1_NC_041959: hypothetical protein; NCTC12359_00288; phage(gi100038)3.98e-05Showinfo_outline
24289339..289650PHAGE_Entero_phiFL1A_NC_013646: DNA binding protein; NCTC12359_00289; phage(gi281416342)1.54e-47Showinfo_outline
25289889..290041Uncharacterised protein; NCTC12359_002900.0Showinfo_outline
26290083..290322Uncharacterised protein; NCTC12359_002910.0Showinfo_outline
27290363..290719PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_00292; phage(gi281416350)7.27e-28Showinfo_outline
28290722..290892Uncharacterised protein; NCTC12359_002930.0Showinfo_outline
29290917..291105Uncharacterised protein; NCTC12359_002940.0Showinfo_outline
30291109..291288Uncharacterised protein; NCTC12359_002950.0Showinfo_outline
31291312..292037PHAGE_Lactoc_PLgT_1_NC_031016: hypothetical protein; NCTC12359_00296; phage(gi100060)7.84e-56Showinfo_outline
32292817..293233PHAGE_Entero_phiFL1A_NC_013646: transcriptional regulator ArpU family; NCTC12359_00297; phage(gi281416357)2.56e-63Showinfo_outline
33294202..294744PHAGE_Lister_vB_LmoS_293_NC_028929: terminase small subunit; NCTC12359_00299; phage(gi971756877)6.39e-50Showinfo_outline
34294716..296014PHAGE_Bacill_PBC1_NC_017976: terminase large subunit; NCTC12359_00300; phage(gi389060324)4.99e-177Showinfo_outline
35complement(296188..297375)PHAGE_Bacill_vB_BceS_MY192_NC_048633: minor tail protein; NCTC12359_00301; phage(gi100055)7.26e-30Showinfo_outline
36297700..299160PHAGE_Bacill_BCJA1c_NC_006557: portal; NCTC12359_00302; phage(gi56694903)2.24e-130Showinfo_outline
37299166..299432PHAGE_Entero_EFC_1_NC_025453: hypothetical protein; NCTC12359_00303; phage(gi725950548)1.24e-09Showinfo_outline
38299433..300581PHAGE_Strept_PH15_NC_010945: putative minor capsid protein; NCTC12359_00304; phage(gi190151450)2.83e-53Showinfo_outline
39300704..301270PHAGE_Lactob_phig1e_NC_004305: minor capsid protein; NCTC12359_00305; phage(gi23455803)6.36e-22Showinfo_outline
40301273..302133PHAGE_Lactob_phiJB_NC_022775: major capsid protein; NCTC12359_00306; phage(gi571797882)2.41e-130Showinfo_outline
41302145..302390PHAGE_Lactoc_98201_NC_031064: hypothetical protein; NCTC12359_00307; phage(gi100036)1.60e-26Showinfo_outline
42302420..302809PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; NCTC12359_00308; phage(gi56694910)4.88e-27Showinfo_outline
43302809..303147minor capsid protein, putative; NCTC12359_003090.0Showinfo_outline
44303147..303479PHAGE_Strept_MM1_NC_003050: putative minor capsid protein 3; NCTC12359_00310; phage(gi15088781)9.93e-21Showinfo_outline
45303479..303886PHAGE_Lactob_phig1e_NC_004305: minor capsid protein; NCTC12359_00311; phage(gi23455807)4.83e-27Showinfo_outline
46303886..304338PHAGE_Strept_315.4_NC_004587: putative major tail shaft protein; NCTC12359_00312; phage(gi28876334)4.18e-32Showinfo_outline
47304379..304822PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; NCTC12359_00313; phage(gi56694915)3.99e-21Showinfo_outline
48304832..305401PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; NCTC12359_00314; phage(gi56694916)1.69e-52Showinfo_outline
49305394..308963PHAGE_Strept_9871_NC_031069: hypothetical protein; NCTC12359_00315; phage(gi100015)2.76e-109Showinfo_outline
50308960..309676PHAGE_Clostr_phiCT19406C_NC_029006: tail protein; NCTC12359_00316; phage(gi971821558)1.06e-14Showinfo_outline
51309673..313488PHAGE_Strept_PH15_NC_010945: putative endopeptidase; NCTC12359_00317; phage(gi190151464)1.82e-88Showinfo_outline
52313503..313814PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; NCTC12359_00318; phage(gi971482584)6.14e-06Showinfo_outline
53313900..314304PHAGE_Bacill_Shbh1_NC_030925: head morphogenesis protein; NCTC12359_00319; phage(gi100068)5.64e-45Showinfo_outline
54314321..315469PHAGE_Clostr_c_st_NC_007581: putative IS transposase (OrfB); NCTC12359_00320; phage(gi80159731)2.88e-144Showinfo_outline
55315930..316003tRNA0.0Showinfo_outline
56316127..316140attR0.0Showinfo_outline
57complement(316381..317607)PROPHAGE_Oceano_HTE831: integrase; NCTC12359_00322; phage(gi23097608)1.47e-24Showinfo_outline
58318147..318161attL0.0Showinfo_outline
59318286..319245PHAGE_Staphy_StauST398_4_NC_023499: putative transposase; NCTC12359_00323; phage(gi588498272)4.10e-34Showinfo_outline
60323152..323166attR0.0Showinfo_outline
61325755..325767attR0.0Showinfo_outline

Region 2, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1433972..1435246)PHAGE_Ralsto_RSA1_NC_009382: transposase IRSO15-like; NCTC12359_01408; phage(gi145708108)1.33e-19Showinfo_outline
2complement(1435435..1435821)Uncharacterised protein; NCTC12359_014090.0Showinfo_outline
31436086..1436808PHAGE_Synech_S_SKS1_NC_020851: phosphoribosylaminoimidazole-succinocarboxamide synthase; NCTC12359_01410; phage(gi472340864)1.12e-59Showinfo_outline
41436799..1437062PHAGE_Cyanop_S_RIM12_NC_047716: pore-forming tail tip protein; NCTC12359_01411; phage(gi100139)1.78e-10Showinfo_outline
51437059..1437736phosphoribosylformylglycinamidine synthase 1; NCTC12359_014120.0Showinfo_outline
61437729..1439957PHAGE_Microb_Min1_NC_009603: putative phosphoribosyl formylglycinamidine (FGAM) synthase II; NCTC12359_01413; phage(gi149882852)0.0Showinfo_outline
71439942..1441363PHAGE_Pseudo_tf_NC_017971: glutamine amidotransferase; NCTC12359_01414; phage(gi388604590)5.47e-07Showinfo_outline
81441385..1442431PHAGE_Synech_S_SKS1_NC_020851: glycinamide ribonucleotide formyltransferase; NCTC12359_01415; phage(gi472340860)1.22e-73Showinfo_outline
91442428..1443009PHAGE_Synech_S_SKS1_NC_020851: cyanobacterial phosphoribosylglycinamide formyltransferase; NCTC12359_01416; phage(gi472340960)4.63e-39Showinfo_outline
101443006..1444544PHAGE_Prochl_P_SSM2_NC_006883: 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase/IMP cyclohydrolase; NCTC12359_01417; phage(gi61806062)2.44e-95Showinfo_outline

Region 3, total 28 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1897244..1898239)PHAGE_Clostr_phiCDHM19_NC_028996: putative terminase large subunit protein; NCTC12359_01864; phage(gi971763867)2.11e-109Showinfo_outline
2complement(1898226..1898510)Uncharacterised protein; NCTC12359_018650.0Showinfo_outline
3complement(1898761..1898952)Uncharacterised protein; NCTC12359_018660.0Showinfo_outline
4complement(1898970..1899506)Uncharacterised protein; NCTC12359_018670.0Showinfo_outline
5complement(1899839..1900237)PHAGE_Entero_vB_IME197_NC_028671: ArpU family transcriptional regulator; NCTC12359_01868; phage(gi966199002)2.31e-39Showinfo_outline
6complement(1900927..1901061)Uncharacterised protein; NCTC12359_018690.0Showinfo_outline
7complement(1901076..1901459)PHAGE_Staphy_phiETA2_NC_008798: anti-repressor protein; NCTC12359_01870; phage(gi122891722)4.38e-37Showinfo_outline
8complement(1901494..1901619)PHAGE_Brocho_NF5_NC_015252: gp30; NCTC12359_01871; phage(gi327197615)7.86e-12Showinfo_outline
9complement(1901916..1902068)Uncharacterised protein; NCTC12359_018720.0Showinfo_outline
10complement(1902069..1902434)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_01873; phage(gi281416344)4.16e-05Showinfo_outline
11complement(1902431..1902724)Uncharacterised protein; NCTC12359_018740.0Showinfo_outline
12complement(1902714..1903640)PHAGE_Geobac_E2_NC_009552: putative replication protein; NCTC12359_01875; phage(gi148747766)6.62e-45Showinfo_outline
13complement(1903690..1904184)PHAGE_Lactob_Sha1_NC_019489: hypothetical protein; NCTC12359_01876; phage(gi418489845)2.03e-30Showinfo_outline
14complement(1904212..1904307)PHAGE_Lactob_Sha1_NC_019489: hypothetical protein; NCTC12359_01877; phage(gi418489845)2.74e-05Showinfo_outline
15complement(1904309..1904860)PHAGE_Lactob_Sha1_NC_019489: phage nucleotide-binding protein; NCTC12359_01878; phage(gi418489844)1.47e-80Showinfo_outline
16complement(1904879..1904974)PHAGE_Lactob_Sha1_NC_019489: phage nucleotide-binding protein; NCTC12359_01879; phage(gi418489844)7.27e-09Showinfo_outline
17complement(1904977..1905525)PHAGE_Lactob_Sha1_NC_019489: phage protein; NCTC12359_01880; phage(gi418489843)6.85e-26Showinfo_outline
18complement(1905519..1905611)Uncharacterised protein; NCTC12359_018810.0Showinfo_outline
19complement(1905608..1905946)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; NCTC12359_01882; phage(gi281416336)1.72e-10Showinfo_outline
20complement(1906042..1906785)PHAGE_Strept_phiBHN167_NC_022791: phage protein; NCTC12359_01883; phage(gi557745663)1.98e-59Showinfo_outline
21complement(1907058..1907204)PHAGE_Entero_EFC_1_NC_025453: replication terminator protein; NCTC12359_01884; phage(gi725950528)2.27e-07Showinfo_outline
22complement(1907249..1907470)Uncharacterised protein; NCTC12359_018850.0Showinfo_outline
23complement(1907463..1907612)PHAGE_Entero_EF62phi_NC_017732: hypothetical protein; NCTC12359_01886; phage(gi384519764)3.46e-18Showinfo_outline
241907690..1907965Uncharacterised protein; NCTC12359_018870.0Showinfo_outline
251908032..1908214PHAGE_Staphy_CNPx_NC_031241: hypothetical protein; NCTC12359_01888; phage(gi100038)2.51e-11Showinfo_outline
26complement(1908154..1908330)Uncharacterised protein; NCTC12359_018890.0Showinfo_outline
27complement(1908577..1908876)DNA binding domain, excisionase family; NCTC12359_018900.0Showinfo_outline
281908954..1909346PHAGE_Strept_315.2_NC_004585: hypothetical protein; NCTC12359_01891; phage(gi28876256)1.38e-25Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 1941722 bps
Phages: 3
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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