Submission Results

Sequence Name: Listeria monocytogenes serotype 1/2a str. F6854 strain 1/2a F6854,

GenBank Accession Number: AADQ00000000.1

GenInfo (GI) Number: 47016950

Download Results: AADQ00000000.1.PHASTER.zip

gi|47016950|ref|AADQ00000000.1| Listeria monocytogenes serotype 1/2a str. F6854 strain 1/2a F6854 .2950285, gc%: 37.85%

Download summary as .txt file: summary.txt file_download

Total: 4 prophage regions have been identified, of which 1 regions are intact, 3 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
122.9Kbincomplete5026492429-515404 info_outlinePHAGE_Lister_A11838.55%Show info_outline
246.9Kbintact100621278387-1325340 info_outlinePHAGE_Lister_A11836.35%Show info_outline
316.1Kbincomplete10212587189-2603315 info_outlinePHAGE_Lister_A00636.99%Show info_outline
416Kbincomplete10232756056-2772069 info_outlinePHAGE_Lister_A50037.01%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|47016950|ref|AADQ00000000.1| Listeria monocytogenes serotype 1/2a str. F6854 strain 1/2a F6854 [asmbl_id: NC_000000].2950285, gc%: 37.85%

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
1complement(492429..494210)PHAGE_Bacill_SPBc2: ABC transporter; LMOf6854_0120; phage(gi9630145)7e-35Showinfo_outline
2complement(494203..495945)PHAGE_Bacill_SPBc2: ABC transporter; LMOf6854_0121; phage(gi9630145)1e-30Showinfo_outline
3496088..496921transcriptional regulator, AraC family; LMOf6854_01220.0Showinfo_outline
4496957..498072PHAGE_Acanth_moumouvirus: putative triacylglycerol lipase; LMOf6854_0123; phage(gi441432487)8e-20Showinfo_outline
5498176..498886EAL domain protein; LMOf6854_01240.0Showinfo_outline
6complement(498856..499551)conserved hypothetical protein; LMOf6854_01250.0Showinfo_outline
7complement(499770..500222)PHAGE_Lister_A118: gp35; LMOf6854_0126; phage(gi16798818)3e-29Showinfo_outline
8complement(500228..500563)PHAGE_Staphy_92: ORF019; LMOf6854_0127; phage(gi66396425)4e-15Showinfo_outline
9500780..501208PHAGE_Lister_A118: gp61; LMOf6854_0128; phage(gi16798848)6e-16Showinfo_outline
10501220..501636PHAGE_Lister_A118: gp66; LMOf6854_0129; phage(gi16798853)2e-22Showinfo_outline
11501923..502303PHAGE_Strept_5: hypothetical protein SpyM3_1317; LMOf6854_0130; phage(gi28876399)5e-05Showinfo_outline
12502316..502828PHAGE_Clostr_phi8074_B1: putative phage major tail protein; LMOf6854_0131; phage(gi431810369)5e-19Showinfo_outline
13502876..503178PHAGE_Strept_5: hypothetical protein SpyM3_1315; LMOf6854_0132; phage(gi28876397)9e-08Showinfo_outline
14503232..503624PHAGE_Strept_5: hypothetical protein SpyM3_1314; LMOf6854_0133; phage(gi28876396)5e-24Showinfo_outline
15503611..505479PHAGE_Propio_PAD20: Gp14; LMOf6854_0134; phage(gi330858412)6e-48Showinfo_outline
16505476..506294PHAGE_Lister_A118: gp17; LMOf6854_0135; phage(gi16798800)3e-44Showinfo_outline
17506304..507440PHAGE_Lister_A118: gp18; LMOf6854_0136; phage(gi16798801)1e-48Showinfo_outline
18507430..507729PHAGE_Deep_s_D6E: tail fiber protein; LMOf6854_0137; phage(gi423262345)5e-05Showinfo_outline
19507744..508319conserved hypothetical protein; LMOf6854_01380.0Showinfo_outline
20508334..508813PHAGE_Deep_s_D6E: tail fiber protein; LMOf6854_0139; phage(gi423262345)1e-06Showinfo_outline
21508810..509346PHAGE_Lister_A118: gp20; LMOf6854_0140; phage(gi16798803)4e-05Showinfo_outline
22509365..509787PHAGE_Bacill_WBeta: phage holin; LMOf6854_0141; phage(gi85701395)6e-32Showinfo_outline
23509756..510496PHAGE_Bacill_SPP1: hypothetical protein SPP1p051; LMOf6854_0142; phage(gi22855096)5e-37Showinfo_outline
24complement(510535..512883)PROPHAGE_Pseudo_PAO1: coat protein A of bacteriophage Pf1; LMOf6854_0143; phage(gi15595921)3e-08Showinfo_outline
25513077..513826EAL domain protein; LMOf6854_01440.0Showinfo_outline
26complement(513896..515404)PHAGE_Staphy_42E: ORF012; LMOf6854_0145; phage(gi66395520)3e-18Showinfo_outline

Region 2, total 64 CDS

#CDS PositionBLAST HitE-ValueSequence
11278387..1280660PHAGE_Mycoba_Omega: gp203; LMOf6854_1428; phage(gi29566938)2e-86Showinfo_outline
2complement(1280694..1281533)pyrroline-5-carboxylate reductase, putative; LMOf6854_14290.0Showinfo_outline
31281885..1282958surface antigen; LMOf6854_14300.0Showinfo_outline
41283392..1283863PHAGE_Amsact_: putative ATP-binding cassette transporter; LMOf6854_1431; phage(gi9964444)5e-08Showinfo_outline
51283889..1284164PHAGE_Lister_A006: gp25; LMOf6854_2335; phage(gi157325440)1e-22Showinfo_outline
61284193..1284564PHAGE_Lister_A118: gp29; LMOf6854_2336; phage(gi16798812)1e-27Showinfo_outline
71284485..1284496attL0.0Showinfo_outline
81284570..1285019PHAGE_Lister_A118: gp28; LMOf6854_2337; phage(gi16798811)4e-67Showinfo_outline
91285044..1285541PHAGE_Lister_A006: gp22; LMOf6854_2338; phage(gi157325437)2e-91Showinfo_outline
101285816..1286589PHAGE_Lister_A006: gp21; LMOf6854_2339; phage(gi157325436)8e-152Showinfo_outline
11complement(1286630..1287475)PHAGE_Lister_A118: L-alanoyl-D-glutamate peptidase; LMOf6854_2340; phage(gi16798808)1e-154Showinfo_outline
12complement(1287475..1287756)PHAGE_Lister_A118: holin; LMOf6854_2341; phage(gi16798807)1e-47Showinfo_outline
13complement(1287769..1288134)PHAGE_Lister_A118: gp23; LMOf6854_2342; phage(gi16798806)8e-63Showinfo_outline
14complement(1288162..1288320)PHAGE_Lister_A118: gp22; LMOf6854_2343; phage(gi16798805)7e-23Showinfo_outline
15complement(1288325..1288642)PHAGE_Lister_A118: gp21; LMOf6854_2344; phage(gi16798804)9e-58Showinfo_outline
16complement(1288654..1289727)PHAGE_Lister_A118: gp20; LMOf6854_2345; phage(gi16798803)0.0Showinfo_outline
17complement(1289727..1290755)PHAGE_Lister_A118: gp19; LMOf6854_2346; phage(gi16798802)0.0Showinfo_outline
18complement(1290756..1291781)PHAGE_Lister_A118: gp18; LMOf6854_2347; phage(gi16798801)0.0Showinfo_outline
19complement(1291790..1292608)PHAGE_Lister_A118: gp17; LMOf6854_2348; phage(gi16798800)2e-147Showinfo_outline
20complement(1292610..1297973)PHAGE_Lister_A118: putative tape-measure protein; LMOf6854_2349; phage(gi16798799)0.0Showinfo_outline
21complement(1297984..1298589)PHAGE_Lister_A118: gp15; LMOf6854_2350; phage(gi16798798)9e-113Showinfo_outline
22complement(1298594..1299016)PHAGE_Lister_A118: gp14; LMOf6854_2351; phage(gi16798797)4e-71Showinfo_outline
23complement(1299068..1299361)PHAGE_Lister_A118: gp13; LMOf6854_2352; phage(gi16798796)3e-39Showinfo_outline
24complement(1299330..1299767)PHAGE_Lister_A118: major tail shaft protein; LMOf6854_2353; phage(gi16798795)8e-75Showinfo_outline
25complement(1299770..1300177)PHAGE_Lister_A118: gp11; LMOf6854_2354; phage(gi16798794)3e-63Showinfo_outline
26complement(1300177..1300515)PHAGE_Lister_A118: gp10; LMOf6854_2355; phage(gi16798793)6e-52Showinfo_outline
27complement(1300515..1300877)PHAGE_Lister_A118: gp9; LMOf6854_2356; phage(gi16798792)2e-64Showinfo_outline
28complement(1300877..1301272)PHAGE_Lister_A118: gp8; LMOf6854_2357; phage(gi16798791)4e-67Showinfo_outline
29complement(1301274..1301432)PHAGE_Lister_A118: gp7; LMOf6854_2358; phage(gi16798790)3e-19Showinfo_outline
30complement(1301432..1302268)PHAGE_Temper_1: major capsid protein; LMOf6854_2359; phage(gi16271809)6e-61Showinfo_outline
31complement(1302291..1302890)PHAGE_Lister_A118: putative scaffolding protein; LMOf6854_2360; phage(gi16798788)3e-58Showinfo_outline
32complement(1302969..1304108)PHAGE_Lister_A118: gp4; LMOf6854_2361; phage(gi16798787)0.0Showinfo_outline
33complement(1304114..1305559)PHAGE_Lister_A118: putative portal protein; LMOf6854_2362; phage(gi16798786)0.0Showinfo_outline
34complement(1305617..1306927)PHAGE_Strept_5093: putative terminase large subunit; LMOf6854_2363; phage(gi238801895)3e-176Showinfo_outline
35complement(1306920..1307675)PHAGE_Bacill_BCJA1c: terminase small subunit; LMOf6854_2364; phage(gi56694901)3e-49Showinfo_outline
36complement(1307759..1308469)PHAGE_Lister_A118: gp68; LMOf6854_2365; phage(gi16798855)2e-130Showinfo_outline
37complement(1308706..1309278)PHAGE_Staphy_SpaA1: sigma70, RNA polymerase sigma factor, positive control factor Xpf (C-terminal region); LMOf6854_2366; phage(gi399498918)8e-12Showinfo_outline
38complement(1309366..1309521)hypothetical gene lin2398 -related protein; LMOf6854_23670.0Showinfo_outline
39complement(1309540..1309953)PHAGE_Lister_A500: gp59; LMOf6854_2368; phage(gi157325018)9e-22Showinfo_outline
40complement(1309957..1310361)PHAGE_Lister_A500: gp58; LMOf6854_2369; phage(gi157325017)2e-62Showinfo_outline
41complement(1310306..1310497)PHAGE_Lister_A500: gp57; LMOf6854_2370; phage(gi157325016)2e-28Showinfo_outline
42complement(1310516..1310998)PHAGE_Lister_A118: putative SSB protein; LMOf6854_2371; phage(gi16798847)5e-88Showinfo_outline
43complement(1310995..1311195)conserved hypothetical protein; LMOf6854_23720.0Showinfo_outline
44complement(1311278..1311445)conserved hypothetical protein; LMOf6854_23730.0Showinfo_outline
45complement(1311442..1311903)PHAGE_Brocho_A9: gp39; LMOf6854_2374; phage(gi327197682)1e-20Showinfo_outline
46complement(1311900..1312370)PHAGE_Lister_A500: gp54; LMOf6854_2375; phage(gi157325013)6e-59Showinfo_outline
47complement(1312367..1312810)PHAGE_Lister_A500: gp52; LMOf6854_2376; phage(gi157325010)3e-47Showinfo_outline
48complement(1312807..1313004)conserved hypothetical protein; LMOf6854_23770.0Showinfo_outline
49complement(1313007..1313603)PHAGE_Lister_A118: gp51; LMOf6854_2378; phage(gi16798838)4e-45Showinfo_outline
50complement(1313600..1314412)PHAGE_Lister_2389: methylase; LMOf6854_2379; phage(gi17488539)6e-153Showinfo_outline
51complement(1314409..1315353)PHAGE_Lister_A118: gp49; LMOf6854_2380; phage(gi16798836)2e-176Showinfo_outline
52complement(1315373..1316188)PHAGE_Lister_A118: putative recombinase; LMOf6854_2381; phage(gi16798835)2e-153Showinfo_outline
53complement(1316191..1317150)PHAGE_Lister_A118: gp47; LMOf6854_2382; phage(gi16798834)2e-175Showinfo_outline
54complement(1317385..1317573)PHAGE_Lister_A118: gp45; LMOf6854_2383; phage(gi16798832)4e-24Showinfo_outline
55complement(1317894..1318427)PHAGE_Lister_A118: gp43; LMOf6854_2384; phage(gi16798830)6e-74Showinfo_outline
56complement(1318550..1319326)PHAGE_Lister_A118: putative anti-repressor promoter; LMOf6854_2385; phage(gi16798829)6e-116Showinfo_outline
57complement(1319589..1319870)PHAGE_Lister_A118: gp41; LMOf6854_2386; phage(gi16798827)1e-33Showinfo_outline
58complement(1320383..1320625)PHAGE_Lister_B054: gp42; LMOf6854_2387; phage(gi157325326)2e-12Showinfo_outline
591320781..1321257PHAGE_Lister_A118: putative repressor protein; LMOf6854_2388; phage(gi16798819)2e-12Showinfo_outline
601321638..1322339PHAGE_Lister_A118: gp33; LMOf6854_2389; phage(gi16798816)7e-88Showinfo_outline
611322360..1323040PHAGE_Lister_A118: gp32; LMOf6854_2390; phage(gi16798815)2e-05Showinfo_outline
621322754..1322765attR0.0Showinfo_outline
631323104..1324462PHAGE_Lister_A118: putative integrase; LMOf6854_2391; phage(gi16798814)0.0Showinfo_outline
64complement(1324984..1325340)PHAGE_Clostr_PhiS63: gp36; LMOf6854_2393; phage(gi388570662)4e-07Showinfo_outline

Region 3, total 21 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(2587189..2588325)PHAGE_Rhizob_3: p081; LMOf6854_0002; phage(gi195546611)3e-31Showinfo_outline
2complement(2588544..2591079)PHAGE_Lister_A006: gp15; LMOf6854_2661; phage(gi157325429)0.0Showinfo_outline
3complement(2591084..2591359)PHAGE_Lister_A006: gp14; LMOf6854_2662; phage(gi157325428)8e-44Showinfo_outline
4complement(2591392..2591823)PHAGE_Lister_A006: gp13; LMOf6854_2663; phage(gi157325427)2e-72Showinfo_outline
5complement(2591872..2592144)PHAGE_Lister_A006: Tsh; LMOf6854_2664; phage(gi157325426)2e-15Showinfo_outline
6complement(2592134..2592565)PHAGE_Lister_A006: Tsh; LMOf6854_2665; phage(gi157325426)2e-61Showinfo_outline
7complement(2592537..2592941)PHAGE_Lister_A006: gp11; LMOf6854_2666; phage(gi157325425)2e-65Showinfo_outline
8complement(2592938..2593255)PHAGE_Lister_A006: gp10; LMOf6854_2667; phage(gi157325424)2e-51Showinfo_outline
9complement(2593610..2593963)PHAGE_Lister_A006: gp8; LMOf6854_2668; phage(gi157325483)6e-63Showinfo_outline
10complement(2593964..2594119)PHAGE_Lister_A006: gp7; LMOf6854_2669; phage(gi157325482)9e-13Showinfo_outline
11complement(2594133..2595005)PHAGE_Lister_A006: Cps; LMOf6854_2670; phage(gi157325479)7e-143Showinfo_outline
12complement(2595028..2595582)PHAGE_Lister_A006: gp5; LMOf6854_2671; phage(gi157325467)7e-103Showinfo_outline
13complement(2595678..2596721)PHAGE_Lister_A006: gp4; LMOf6854_2672; phage(gi157325456)0.0Showinfo_outline
14complement(2596726..2598282)PHAGE_Lister_A006: gp3; LMOf6854_2673; phage(gi157325445)0.0Showinfo_outline
15complement(2598297..2599625)PHAGE_Lister_A006: TerL; LMOf6854_2674; phage(gi157325434)0.0Showinfo_outline
16complement(2599555..2600340)PHAGE_Lister_A006: TerS; LMOf6854_2675; phage(gi157325423)8e-132Showinfo_outline
17complement(2600380..2600607)PHAGE_Lister_A006: gp62; LMOf6854_2676; phage(gi157325481)3e-33Showinfo_outline
18complement(2601153..2601755)hypothetical protein; LMOf6854_26770.0Showinfo_outline
19complement(2601782..2602219)PHAGE_Lister_A006: gp59; LMOf6854_2678; phage(gi157325477)2e-69Showinfo_outline
20complement(2602385..2602771)PHAGE_Lister_A500: gp59; LMOf6854_2679; phage(gi157325018)2e-45Showinfo_outline
21complement(2603124..2603315)PHAGE_Lister_A500: gp57; LMOf6854_2680; phage(gi157325016)2e-28Showinfo_outline

Region 4, total 23 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(2756056..2757033)PHAGE_Parame_1: Amindase; LMOf6854_2129; phage(gi9631852)7e-24Showinfo_outline
2complement(2757291..2758628)PHAGE_Halocy_JM_2012: chaperonin GroEL; LMOf6854_2130; phage(gi389060206)1e-42Showinfo_outline
32758751..2758867PHAGE_Lister_A118: gp45; LMOf6854_2697; phage(gi16798832)1e-14Showinfo_outline
42759100..2760611PHAGE_Lister_B054: gp49; LMOf6854_2696; phage(gi157325333)8e-34Showinfo_outline
52760604..2761515PHAGE_Lactob_LF1: RecT protein; LMOf6854_2695; phage(gi418489428)1e-12Showinfo_outline
62761553..2762458PHAGE_Lister_A500: gp45; LMOf6854_2694; phage(gi157325004)3e-81Showinfo_outline
72762462..2762659hypothetical protein; LMOf6854_26930.0Showinfo_outline
82762676..2762969PHAGE_Lister_A500: gp47; LMOf6854_2692; phage(gi157325006)2e-50Showinfo_outline
92762966..2763175PHAGE_Lister_A500: gp48; LMOf6854_2691; phage(gi157325007)6e-30Showinfo_outline
102763172..2763774PHAGE_Lister_A118: gp51; LMOf6854_2690; phage(gi16798838)5e-38Showinfo_outline
112763952..2764359PHAGE_Lister_A500: gp52; LMOf6854_2689; phage(gi157325010)1e-12Showinfo_outline
122764356..2764565PHAGE_Lister_B025: gp47; LMOf6854_2688; phage(gi157325264)2e-30Showinfo_outline
132764562..2765047PHAGE_Lister_A500: gp54; LMOf6854_2687; phage(gi157325013)6e-56Showinfo_outline
142765044..2765250PHAGE_Lister_A511: gp20; LMOf6854_2686; phage(gi157325165)9e-26Showinfo_outline
152765250..2765510hypothetical protein; LMOf6854_26850.0Showinfo_outline
162765507..2765908PHAGE_Lister_A118: gp59; LMOf6854_2684; phage(gi16798846)3e-47Showinfo_outline
172765905..2766405conserved hypothetical protein; LMOf6854_26830.0Showinfo_outline
182766402..2766884PHAGE_Lister_A500: gp56; LMOf6854_2682; phage(gi157325015)2e-79Showinfo_outline
192766903..2767094PHAGE_Lister_A500: gp57; LMOf6854_2681; phage(gi157325016)2e-28Showinfo_outline
20complement(2767300..2767511)translation elongation factor Ts; LMOf6854_17130.0Showinfo_outline
21complement(2767651..2768400)ribosomal protein S2; LMOf6854_17140.0Showinfo_outline
22complement(2768888..2769403)hypothetical protein; LMOf6854_17150.0Showinfo_outline
23complement(2769544..2772069)PHAGE_Acanth_moumouvirus: isoleucyl-tRNA synthetase; LMOf6854_1716; phage(gi441432219)6e-13Showinfo_outline
Listeria monocytogenes serotype 1/2a str. F6854 strain 1/2a F6854
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 2950285 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