Submission Results

Sequence Name: Not Available

GenBank Accession Number: UGIH01000001.1

GenInfo (GI) Number: 0000000000

Download Results: UGIH01000001.1.PHASTER.zip

gi|00000000|ref|UGIH01000001.1| Enterococcus avium strain NCTC9938 genome assembly, contig: 1993460, gc%: 38.98%

Download summary as .txt file: summary.txt file_download

Total: 4 prophage regions have been identified, of which 1 regions are intact, 2 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
142.5Kbintact130501292238-1334764 info_outlinePHAGE_Strept_315.5_NC_004588(9)38.72%Show info_outline
213.1Kbincomplete3091511261-1524418 info_outlinePHAGE_Mycoba_Barriga_NC_028804(1)38.08%Show info_outline
334.3Kbincomplete60141831873-1866188 info_outlinePHAGE_Geobac_GBSV1_NC_008376(2)35.78%Show info_outline
47.5Kbquestionable7091874139-1881663 info_outlinePHAGE_Bacter_Sitara_NC_028854(2)36.76%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|UGIH01000001.1| Enterococcus avium strain NCTC9938 genome assembly, contig: 1993460, gc%: 38.98%

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 52 CDS

#CDS PositionBLAST HitE-ValueSequence
11292238..1293206PHAGE_Synech_S_SM2_NC_015279: zinc-containing alcohol dehydrogenase superfamily protein; NCTC9938_01272; phage(gi326781942)7.12e-08Showinfo_outline
21293230..1293328Uncharacterised protein; NCTC9938_012730.0Showinfo_outline
31293383..1294270transcriptional regulator; NCTC9938_012740.0Showinfo_outline
41294336..1294965Uncharacterized conserved protein; NCTC9938_012750.0Showinfo_outline
51295050..1295325Uncharacterised protein; NCTC9938_012760.0Showinfo_outline
61295327..1295338attL0.0Showinfo_outline
7complement(1295554..1296732)PHAGE_Lactoc_bIL309_NC_002668: integrase; NCTC9938_01277; phage(gi13095806)1.11e-107Showinfo_outline
8complement(1296848..1297687)PHAGE_Paenib_Tadhana_NC_048691: holin; NCTC9938_01278; phage(gi100034)7.35e-42Showinfo_outline
91297861..1298106PHAGE_Lactob_T25_NC_048625: endolysin; NCTC9938_01279; phage(gi100033)6.24e-10Showinfo_outline
101298138..1298452PHAGE_Staphy_EW_NC_007056: ORF040; NCTC9938_01280; phage(gi66395845)5.57e-15Showinfo_outline
111298469..1299245PHAGE_Lactob_PLE2_NC_031036: hypothetical protein; NCTC9938_01281; phage(gi100031)2.25e-96Showinfo_outline
121299258..1299848Uncharacterised protein; NCTC9938_012820.0Showinfo_outline
131299851..1300033Uncharacterised protein; NCTC9938_012830.0Showinfo_outline
141300039..1300845PHAGE_Vibrio_vB_VpS_PG07_NC_048041: lysozyme; NCTC9938_01284; phage(gi100110)2.32e-06Showinfo_outline
151300872..1302821PHAGE_Bacill_Pavlov_NC_028782: nucleoside triphosphate hydrolase; NCTC9938_01285; phage(gi971743031)1.12e-96Showinfo_outline
161302825..1303022Uncharacterised protein; NCTC9938_012860.0Showinfo_outline
171303022..1303906PHAGE_Brocho_NF5_NC_015252: gp35; NCTC9938_01287; phage(gi327197620)5.72e-114Showinfo_outline
181303899..1304627PHAGE_Lister_B054_NC_009813: gp51; NCTC9938_01288; phage(gi157325335)1.02e-70Showinfo_outline
191304639..1305394PHAGE_Lactob_Lrm1_NC_011104: DNA replication protein; NCTC9938_01289; phage(gi195661236)4.69e-59Showinfo_outline
201305394..1306239PHAGE_Lactob_iA2_NC_028830: DNA replication protein; NCTC9938_01290; phage(gi971747669)4.38e-31Showinfo_outline
211306236..1306475PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; NCTC9938_01291; phage(gi966198986)5.75e-06Showinfo_outline
221306480..1306953PHAGE_Lactob_Lenus_NC_047897: tail length tape-measure protein; NCTC9938_01292; phage(gi100057)2.20e-31Showinfo_outline
231306963..1307088Uncharacterised protein; NCTC9938_012930.0Showinfo_outline
241307100..1307288Uncharacterised protein; NCTC9938_012940.0Showinfo_outline
251307289..1308095PHAGE_Lister_B054_NC_009813: gp58; NCTC9938_01295; phage(gi157325342)6.84e-14Showinfo_outline
261308290..1308487Uncharacterised protein; NCTC9938_012960.0Showinfo_outline
271308502..1308849PHAGE_Lactoc_98201_NC_031064: hypothetical protein; NCTC9938_01297; phage(gi100028)4.98e-11Showinfo_outline
281308846..1309067Uncharacterised protein; NCTC9938_012980.0Showinfo_outline
29complement(1309538..1309774)Uncharacterised protein; NCTC9938_012990.0Showinfo_outline
301310045..1310686Uncharacterised protein; NCTC9938_013000.0Showinfo_outline
311310757..1311227PHAGE_Lister_B054_NC_009813: gp71; NCTC9938_01301; phage(gi157325354)6.19e-09Showinfo_outline
321311439..1311621Uncharacterised protein; NCTC9938_013020.0Showinfo_outline
331311672..1312937PHAGE_Bacill_vB_BtS_B83_NC_048762: head morphogenesis protein; NCTC9938_01303; phage(gi100068)1.65e-112Showinfo_outline
341313071..1313286PHAGE_Bacill_vB_BtS_B83_NC_048762: portal protein; NCTC9938_01304; phage(gi100069)5.62e-05Showinfo_outline
351313333..1314169PHAGE_Entero_phiFL1A_NC_013646: terminase small subunit; NCTC9938_01305; phage(gi281416361)9.85e-85Showinfo_outline
361314162..1315568PHAGE_Bacill_vB_BtS_BMBtp14_NC_048640: minor tail protein; NCTC9938_01306; phage(gi100055)2.22e-173Showinfo_outline
371315568..1316911PHAGE_Strept_9873_NC_047763: hypothetical protein; NCTC9938_01307; phage(gi100004)2.52e-141Showinfo_outline
381316916..1317824PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01308; phage(gi28876407)3.85e-65Showinfo_outline
391317829..1318176PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; NCTC9938_01309; phage(gi281416471)1.50e-18Showinfo_outline
401318121..1318780PHAGE_Entero_vB_IME197_NC_028671: capsid and scaffold protein; NCTC9938_01310; phage(gi966199012)2.42e-26Showinfo_outline
411318797..1319750PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01311; phage(gi28876404)7.30e-47Showinfo_outline
421319762..1320121PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01312; phage(gi28876402)2.81e-19Showinfo_outline
431320118..1320429PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01313; phage(gi28876401)2.59e-07Showinfo_outline
441320434..1320814PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01314; phage(gi28876400)4.15e-09Showinfo_outline
451320819..1321232PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01315; phage(gi28876399)4.93e-23Showinfo_outline
461321245..1321982PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01316; phage(gi28876398)3.35e-73Showinfo_outline
471321996..1322349PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01317; phage(gi28876397)1.94e-09Showinfo_outline
481322442..1322786PHAGE_Strept_315.5_NC_004588: hypothetical protein; NCTC9938_01318; phage(gi28876396)2.20e-26Showinfo_outline
491322787..1325909PHAGE_Geobac_E2_NC_009552: putative tail tape measure protein; NCTC9938_01319; phage(gi148747742)8.45e-77Showinfo_outline
501325906..1326844PHAGE_Entero_phiEf11_NC_013696: putative phage tail protein; NCTC9938_01320; phage(gi282598752)3.91e-143Showinfo_outline
511326856..1328916PHAGE_Entero_phiEf11_NC_013696: putative phage structural protein; NCTC9938_01321; phage(gi282598760)0.0Showinfo_outline
521334764..1334775attR0.0Showinfo_outline

Region 2, total 11 CDS

#CDS PositionBLAST HitE-ValueSequence
11511261..1511274attL0.0Showinfo_outline
21516101..1516574PHAGE_Mycoba_Nhonho_NC_028815: NifU-like protein; NCTC9938_01505; phage(gi971745749)2.54e-12Showinfo_outline
31516720..1518114FeS assembly protein SufB; NCTC9938_015060.0Showinfo_outline
4complement(1518209..1519351)PROPHAGE_Oceano_HTE831: integrase; NCTC9938_01507; phage(gi23097608)5.32e-79Showinfo_outline
5complement(1519390..1520124)PHAGE_Lactoc_bIL311_NC_002670: repressor; NCTC9938_01508; phage(gi13095660)2.99e-09Showinfo_outline
61520356..1520631PHAGE_Mycoba_Marvin_NC_042032: hypothetical protein; NCTC9938_01509; phage(gi100059)4.89e-06Showinfo_outline
71520729..1522726PHAGE_Bacill_Deep_Purple_NC_048667: hypothetical protein; NCTC9938_01510; phage(gi100003)4.31e-27Showinfo_outline
8complement(1522802..1523137)PHAGE_Erwini_vB_EhrS_59_NC_048198: tail tip protein; NCTC9938_01511; phage(gi100054)3.00e-06Showinfo_outline
91523264..1523479PHAGE_Pseudo_PS_1_NC_029066: CI repressor; NCTC9938_01512; phage(gi985757672)5.16e-10Showinfo_outline
101523516..1523878PHAGE_Lactob_LBR48_NC_027990: putative membrane protein; NCTC9938_01513; phage(gi937456706)2.85e-05Showinfo_outline
111524418..1524431attR0.0Showinfo_outline

Region 3, total 16 CDS

#CDS PositionBLAST HitE-ValueSequence
11831873..1831884attL0.0Showinfo_outline
21840514..1841662PHAGE_Geobac_GBSV1_NC_008376: DNA integration/recombination protein; NCTC9938_01836; phage(gi115334655)2.02e-42Showinfo_outline
3complement(1842019..1842456)PHAGE_Pseudo_phi3_NC_030940: methyltransferase type 11; NCTC9938_01837; phage(gi100001)1.42e-18Showinfo_outline
4complement(1843154..1843516)relaxase/mobilization protein; NCTC9938_018380.0Showinfo_outline
51844136..1845287thioredoxin family protein; NCTC9938_018390.0Showinfo_outline
61845312..1845593Uncharacterised protein; NCTC9938_018400.0Showinfo_outline
71846137..1847414permease; NCTC9938_018410.0Showinfo_outline
81847424..1848080PHAGE_Plankt_PaV_LD_NC_016564: ABC transporter; NCTC9938_01842; phage(gi371496158)1.87e-29Showinfo_outline
91848080..1849456permease; NCTC9938_018430.0Showinfo_outline
101849586..1850833PROPHAGE_Shewan_MR-1: ISSod4, transposase; NCTC9938_01844; phage(gi24373869)1.96e-95Showinfo_outline
11complement(1851015..1851353)PHAGE_Geobac_GBSV1_NC_008376: immunity repressor protein; NCTC9938_01845; phage(gi115334658)9.67e-06Showinfo_outline
121851762..1852472IS116/IS110/IS902 family transposase; NCTC9938_018460.0Showinfo_outline
131852469..1853011PROPHAGE_Escher_CFT073: transposase; NCTC9938_01847; phage(gi26248352)1.66e-13Showinfo_outline
141853261..1853476PHAGE_Pseudo_PS_1_NC_029066: CI repressor; NCTC9938_01848; phage(gi985757672)6.58e-11Showinfo_outline
15complement(1853509..1854915)PROPHAGE_Xantho_33913: IS1478 transposase; NCTC9938_01849; phage(gi77747808)8.01e-24Showinfo_outline
161866188..1866199attR0.0Showinfo_outline

Region 4, total 9 CDS

#CDS PositionBLAST HitE-ValueSequence
11874139..1874534PHAGE_Rhodoc_Jace_NC_047974: hypothetical protein; NCTC9938_01870; phage(gi100088)5.11e-23Showinfo_outline
21874852..1876099PROPHAGE_Shewan_MR-1: ISSod4, transposase; NCTC9938_01871; phage(gi24373869)4.07e-100Showinfo_outline
3complement(1876560..1877204)PHAGE_Bacter_Diva_NC_028788: transposase-like protein; NCTC9938_01872; phage(gi971743572)9.08e-58Showinfo_outline
41877415..1877705PHAGE_Bacter_Diva_NC_028788: transposase; NCTC9938_01873; phage(gi971743573)1.62e-33Showinfo_outline
51877741..1878577PHAGE_Bacter_Diva_NC_028788: transposase-like protein; NCTC9938_01874; phage(gi971743572)1.06e-82Showinfo_outline
6complement(1878727..1879701)choloylglycine hydrolase family protein; NCTC9938_018750.0Showinfo_outline
71879863..1880000Uncharacterised protein; NCTC9938_018760.0Showinfo_outline
81880274..1880603PHAGE_Bacter_Diva_NC_028788: transposase; NCTC9938_01877; phage(gi971743573)2.88e-33Showinfo_outline
9complement(1880827..1881663)PHAGE_Bacter_Diva_NC_028788: transposase-like protein; NCTC9938_01878; phage(gi971743572)1.06e-82Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 1993460 bps
Phages: 4
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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