Submission Results

Sequence Name: Burkholderia pseudomallei 1710a, whole genome shotgun sequencing

GenBank Accession Number: AAHS00000000.3

GenInfo (GI) Number: 156070984

Download Results: AAHS00000000.3.PHASTER.zip

gi|156070984|ref|AAHS00000000| Burkholderia pseudomallei 1710a , whole genome .7329077, gc%: 67.99%

Download summary as .txt file: summary.txt file_download

Total: 6 prophage regions have been identified, of which 2 regions are intact, 4 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
150.4Kbintact150561750506-1800929 info_outlinePHAGE_Burkho_phiE12560.75%Show info_outline
215.3Kbincomplete4072160041-2175427 info_outlinePHAGE_Ectoca_166.58%Show info_outline
320.8Kbincomplete10294147680-4168578 info_outlinePHAGE_Escher_phiKT58.28%Show info_outline
417.6Kbintact110164171110-4188761 info_outlinePHAGE_Burkho_KS958.51%Show info_outline
59.4Kbincomplete40105860462-5869899 info_outlinePHAGE_Staphy_phiPV8369.08%Show info_outline
631Kbincomplete40187208382-7239478 info_outlinePHAGE_Burkho_phi1026b66.06%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|156070984|ref|AAHS00000000| Burkholderia pseudomallei 1710a , whole genome [asmbl_id: NC_000000].7329077, gc%: 67.99%

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 56 CDS

#CDS PositionBLAST HitE-ValueSequence
11750506..1750886PHAGE_Burkho_phiE125: hypothetical protein phiE125p32; PP_01819; phage(gi17975193)1e-68Showinfo_outline
2complement(1751019..1752110)PHAGE_Burkho_phiE125: hypothetical protein phiE125p31; PP_01820; phage(gi17975192)0.0Showinfo_outline
3complement(1753611..1754348)PHAGE_Burkho_phiE125: hypothetical protein phiE125p28; PP_01821; phage(gi17975189)3e-141Showinfo_outline
4complement(1754598..1755386)PHAGE_Burkho_phiE125: DNA adenine methylase; PP_01822; phage(gi17975188)6e-155Showinfo_outline
5complement(1755529..1756032)PHAGE_Burkho_phiE125: hypothetical protein phiE125p26; PP_01823; phage(gi17975187)2e-89Showinfo_outline
6complement(1756074..1756565)PHAGE_Burkho_phiE125: putative lysozyme; PP_01824; phage(gi17975186)2e-75Showinfo_outline
7complement(1756813..1757547)PHAGE_Burkho_phiE125: hypothetical protein phiE125p23; PP_01825; phage(gi17975184)1e-144Showinfo_outline
8complement(1757547..1757774)PHAGE_Burkho_phiE125: hypothetical protein phiE125p22; PP_01826; phage(gi17975183)7e-42Showinfo_outline
9complement(1757858..1761163)PHAGE_Burkho_phiE125: putative tail tip fiber protein; PP_01827; phage(gi17975182)0.0Showinfo_outline
10complement(1761160..1761744)PHAGE_Burkho_phiE125: putative tail component protein; PP_01828; phage(gi17975181)4e-98Showinfo_outline
11complement(1761741..1762493)PHAGE_Burkho_phiE125: putative tail component protein; PP_01829; phage(gi17975180)5e-139Showinfo_outline
12complement(1762543..1763226)PHAGE_Burkho_phiE125: putative minor tail protein; PP_01830; phage(gi17975179)1e-123Showinfo_outline
13complement(1763223..1764611)PHAGE_Burkho_phiE125: hypothetical protein phiE125p17; PP_01831; phage(gi17975178)0.0Showinfo_outline
14complement(1764620..1764958)PHAGE_Burkho_phiE125: putative minor tail protein; PP_01832; phage(gi17975177)1e-61Showinfo_outline
15complement(1764955..1769019)PHAGE_Burkho_phiE125: putative tail length tape measure protein; PP_01833; phage(gi17975176)0.0Showinfo_outline
16complement(1769033..1769317)PHAGE_Burkho_phiE125: hypothetical protein phiE125p14; PP_01834; phage(gi17975175)2e-46Showinfo_outline
17complement(1769317..1769781)PHAGE_Burkho_phiE125: putative tail assembly chaperone proteing; PP_01835; phage(gi17975174)3e-80Showinfo_outline
18complement(1769809..1770216)PHAGE_Burkho_phiE125: putative major tail subunit protein; PP_01836; phage(gi17975173)1e-71Showinfo_outline
19complement(1770329..1770676)PHAGE_Burkho_phiE125: hypothetical protein phiE125p11; PP_01837; phage(gi17975172)1e-59Showinfo_outline
20complement(1770673..1771095)PHAGE_Burkho_phiE125: hypothetical protein phiE125p10; PP_01838; phage(gi17975171)7e-73Showinfo_outline
21complement(1771088..1771231)PHAGE_Burkho_phiE125: hypothetical protein phiE125p09; PP_01839; phage(gi17975170)4e-14Showinfo_outline
22complement(1771419..1771781)PHAGE_Entero_mEp235: head-tail connector II; PP_01840; phage(gi428781817)8e-11Showinfo_outline
23complement(1772073..1773329)PHAGE_Pseudo_vB_PaeS_PMG1: major capsid protein; PP_01841; phage(gi374531651)4e-127Showinfo_outline
24complement(1773332..1773910)PHAGE_Entero_phiP27: putative prohead protease; PP_01842; phage(gi18249903)5e-32Showinfo_outline
25complement(1773999..1775312)PHAGE_Entero_mEp235: portal protein; PP_01843; phage(gi428781813)6e-110Showinfo_outline
26complement(1775309..1777033)PHAGE_Burkho_phiE125: putative terminase (large subunit); PP_01844; phage(gi17975163)0.0Showinfo_outline
27complement(1777034..1777351)PHAGE_Burkho_phiE125: putative terminase (small subunit); PP_01845; phage(gi17975162)3e-56Showinfo_outline
281777316..1777555hypothetical; PP_018460.0Showinfo_outline
29complement(1777667..1778023)PHAGE_Burkho_phiE125: putative class I holin; PP_01847; phage(gi17975232)1e-64Showinfo_outline
301778132..1778341PHAGE_Burkho_phiE125: hypothetical protein phiE125p70; PP_01848; phage(gi17975231)5e-34Showinfo_outline
31complement(1778422..1778568)hypothetical; PP_018500.0Showinfo_outline
321778560..1778724PHAGE_Burkho_phiE125: putative helix-turn-helix transcriptional regulator; PP_01849; phage(gi17975230)2e-22Showinfo_outline
331778801..1778956PHAGE_Burkho_2: gp68, hypothetical protein; PP_01851; phage(gi134288674)1e-08Showinfo_outline
34complement(1779519..1782980)patatin family phospholipase [Burkholderia pseudomallei 1710b] gi|76810332|ref|YP_333078.1|; PP_018520.0Showinfo_outline
35complement(1783319..1783543)hypothetical; PP_018530.0Showinfo_outline
361783884..1784018hypothetical; PP_018540.0Showinfo_outline
37complement(1785736..1786395)PHAGE_Burkho_phiE125: hypothetical protein phiE125p67; PP_01855; phage(gi17975228)8e-107Showinfo_outline
38complement(1786392..1786652)PHAGE_Burkho_phiE125: hypothetical protein phiE125p66; PP_01856; phage(gi17975227)4e-43Showinfo_outline
39complement(1786628..1786960)PHAGE_Burkho_phiE125: hypothetical protein phiE125p65; PP_01857; phage(gi17975226)6e-58Showinfo_outline
40complement(1786963..1787388)PHAGE_Burkho_phiE125: hypothetical protein phiE125p64; PP_01858; phage(gi17975225)2e-64Showinfo_outline
411787634..1787792hypothetical protein BP1026B_I2123 [Burkholderia pseudomallei 1026b] gi|386862187|ref|YP_006275136.1|; PP_018594e-21Showinfo_outline
42complement(1787770..1788273)PHAGE_Burkho_phiE125: hypothetical protein phiE125p62; PP_01860; phage(gi17975223)3e-58Showinfo_outline
43complement(1788318..1789310)PHAGE_Burkho_phiE125: hypothetical protein phiE125p61; PP_01861; phage(gi17975222)0.0Showinfo_outline
44complement(1789464..1789697)PHAGE_Burkho_phiE125: hypothetical protein phiE125p60; PP_01862; phage(gi17975221)8e-36Showinfo_outline
45complement(1789721..1790542)PHAGE_Burkho_phiE125: putative chromosome partitioning protein; PP_01863; phage(gi17975220)3e-149Showinfo_outline
46complement(1790577..1790759)PHAGE_Burkho_phiE125: putative PAPS reductase/sulfotransferase; PP_01864; phage(gi17975219)4e-27Showinfo_outline
47complement(1790864..1792000)PHAGE_Burkho_phiE125: putative DNA cytosine methylase; PP_01865; phage(gi17975218)0.0Showinfo_outline
48complement(1791997..1792143)hypothetical; PP_018660.0Showinfo_outline
49complement(1793237..1793689)PHAGE_Burkho_phiE125: hypothetical protein phiE125p56; PP_01867; phage(gi17975217)1e-57Showinfo_outline
501793892..1794110PHAGE_Burkho_2: gp52; PP_01868; phage(gi134288675)2e-33Showinfo_outline
51complement(1794107..1794289)PHAGE_Burkho_phiE125: hypothetical protein phiE125p54; PP_01869; phage(gi17975215)5e-29Showinfo_outline
52complement(1795679..1797028)PHAGE_Burkho_phi1026b: gp59; PP_01870; phage(gi38707949)0.0Showinfo_outline
53complement(1797123..1798016)PHAGE_Burkho_phi1026b: gp58; PP_01871; phage(gi38707948)8e-171Showinfo_outline
541798566..1798793PHAGE_Burkho_phiE125: hypothetical protein phiE125p50; PP_01872; phage(gi17975211)9e-37Showinfo_outline
551798803..1798934PHAGE_Burkho_phiE125: hypothetical protein phiE125p49; PP_01873; phage(gi17975210)3e-17Showinfo_outline
561799046..1800929PHAGE_Feldma_virus: putative hybrid sensor histdine kinase; PP_01874; phage(gi197322490)4e-07Showinfo_outline

Region 2, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
12160041..2160052attL0.0Showinfo_outline
2complement(2160369..2161727)PROPHAGE_Xantho_306: phage-related integrase; PP_02230; phage(gi21242262)6e-23Showinfo_outline
3complement(2161812..2161888)tRNA0.0Showinfo_outline
4complement(2161926..2162132)hypothetical protein GBP346_A0732 [Burkholderia pseudomallei MSHR346] gi|237811005|ref|YP_002895456.1|; PP_022311e-17Showinfo_outline
5complement(2162129..2163787)PHAGE_Burkho_phi1026b: gp59; PP_02232; phage(gi38707949)3e-46Showinfo_outline
6complement(2164010..2165566)PHAGE_Ectoca_1: EsV-1-65; PP_02234; phage(gi13242537)7e-12Showinfo_outline
7complement(2165590..2166342)PHAGE_Ectoca_1: EsV-1-65; PP_02233; phage(gi13242537)5e-06Showinfo_outline
82166537..2167607PROPHAGE_Escher_MG1655: DNA strand exchange and recombination protein with protease and nuclease activity; PP_02235; phage(gi16130606)2e-131Showinfo_outline
92167607..2168590PHAGE_Salmon_1: putative bacteriophage tail fiber protein; Lambda gpN homolog; PP_02236; phage(gi169257204)6e-05Showinfo_outline
102175427..2175438attR0.0Showinfo_outline

Region 3, total 29 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(4147680..4149989)PHAGE_Pseudo_phiIBB_PF7A: RNA polymerase; PP_04252; phage(gi326536914)6e-66Showinfo_outline
2complement(4150489..4150680)hypothetical; PP_042530.0Showinfo_outline
3complement(4150677..4150925)hypothetical; PP_042540.0Showinfo_outline
4complement(4150951..4151148)hypothetical; PP_042550.0Showinfo_outline
5complement(4151441..4151554)hypothetical; PP_042560.0Showinfo_outline
6complement(4151792..4152382)PHAGE_Burkho_BcepC6B: putative DNA polymerase III protein; PP_04257; phage(gi48697221)5e-22Showinfo_outline
7complement(4152392..4153180)PHAGE_Ralsto_RSB1: hypothetical protein RSB1_gp22; PP_04258; phage(gi197935875)2e-94Showinfo_outline
8complement(4153177..4153392)PHAGE_Ralsto_RSB1: DNA endonuclease VII; PP_04259; phage(gi197935874)4e-10Showinfo_outline
9complement(4153538..4154314)PHAGE_Xantho_phiL7: P41; PP_04260; phage(gi238695628)6e-57Showinfo_outline
10complement(4154892..4155722)PHAGE_Escher_phiKT: hypothetical protein; PP_04261; phage(gi422936615)2e-36Showinfo_outline
11complement(4155743..4158145)PHAGE_Escher_phiKT: DNA polymerase I; PP_04262; phage(gi422936613)0.0Showinfo_outline
12complement(4158192..4158755)PHAGE_Escher_phiKT: deoxyribonucleoside 5'-monophosphate phosphatase; PP_04263; phage(gi422936611)2e-29Showinfo_outline
13complement(4158752..4158913)hypothetical; PP_042640.0Showinfo_outline
14complement(4159083..4160003)PHAGE_Synech_S_CRM01: DNA ligase-product DNA complex - adenylate; PP_04265; phage(gi333798354)1e-55Showinfo_outline
15complement(4160000..4160191)hypothetical; PP_042660.0Showinfo_outline
16complement(4160294..4160452)hypothetical; PP_042670.0Showinfo_outline
17complement(4160587..4160733)hypothetical; PP_042680.0Showinfo_outline
18complement(4160730..4162025)PHAGE_Ralsto_RSB1: replicative DNA helicase; PP_04269; phage(gi197935870)3e-110Showinfo_outline
19complement(4162022..4162153)hypothetical; PP_042700.0Showinfo_outline
20complement(4162186..4162704)PHAGE_Escher_phiKT: DNA primase; PP_04271; phage(gi422936609)7e-33Showinfo_outline
21complement(4163220..4163507)hypothetical; PP_042720.0Showinfo_outline
22complement(4163764..4164015)hypothetical protein BURPS1710b_1646 [Burkholderia pseudomallei 1710b] gi|76810004|ref|YP_333050.1|; PP_042736e-43Showinfo_outline
23complement(4164015..4164386)PHAGE_Pseudo_Bf7: hypothetical protein; PP_04274; phage(gi374531613)1e-05Showinfo_outline
24complement(4164441..4164638)hypothetical; PP_042750.0Showinfo_outline
25complement(4164638..4164970)PHAGE_Ralsto_RSB1: hypothetical protein RSB1_gp13; PP_04276; phage(gi197935866)2e-22Showinfo_outline
26complement(4165063..4165677)hypothetical; PP_042770.0Showinfo_outline
27complement(4166023..4166346)hypothetical; PP_042780.0Showinfo_outline
28complement(4166394..4167113)PHAGE_Mycoba_Pukovnik: gp68; PP_04279; phage(gi192824244)4e-35Showinfo_outline
294167934..4168578PHAGE_Aeromo_phiO18P: putative cI repressor; PP_04280; phage(gi148727133)1e-15Showinfo_outline

Region 4, total 16 CDS

#CDS PositionBLAST HitE-ValueSequence
14171110..4172600PHAGE_Entero_HK022: terminase large subunit; PP_04282; phage(gi9634121)2e-179Showinfo_outline
24172794..4173213PHAGE_Entero_4795: putative major head protein/prohead protease; PP_04283; phage(gi157166041)4e-13Showinfo_outline
34173223..4174557PHAGE_Entero_2008: putative major head protein/prohead proteinase; PP_04284; phage(gi209427776)8e-80Showinfo_outline
44174617..4174787hypothetical; PP_042850.0Showinfo_outline
54174784..4176121PHAGE_Entero_2008: putative portal protein; PP_04286; phage(gi209427777)2e-79Showinfo_outline
64176114..4176404hypothetical protein BPSL1139 [Burkholderia pseudomallei K96243] gi|53718774|ref|YP_107760.1|; PP_042877e-15Showinfo_outline
74176768..4177124PHAGE_Xantho_CP1: hypothetical protein; PP_04288; phage(gi431811008)2e-11Showinfo_outline
84177124..4177561PHAGE_Burkho_KS9: major tail subunit gp10; PP_04289; phage(gi255033742)3e-10Showinfo_outline
94177578..4177706hypothetical; PP_042900.0Showinfo_outline
104177881..4178045hypothetical; PP_042910.0Showinfo_outline
114178813..4181623PHAGE_Entero_cdtI: putative tail protein; PP_04292; phage(gi148609395)2e-50Showinfo_outline
124181689..4181964PHAGE_Burkho_KS9: minor tail protein gp14; PP_04293; phage(gi255033745)8e-14Showinfo_outline
134181968..4183383PHAGE_Burkho_KS9: hypothetical protein gp15; PP_04294; phage(gi255033746)3e-39Showinfo_outline
144183602..4184054PHAGE_Burkho_KS9: minor tail protein gp16; PP_04295; phage(gi255033747)2e-36Showinfo_outline
154184051..4184791PHAGE_Burkho_KS9: tail component protein gp17; PP_04296; phage(gi255033748)3e-73Showinfo_outline
164185366..4188761PHAGE_Burkho_KS9: tail tip fiber protein gp19; PP_04297; phage(gi255033750)0.0Showinfo_outline

Region 5, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
15860462..5861739PHAGE_Suid_h_1: large tegument protein; PP_05937; phage(gi51557505)3e-07Showinfo_outline
25861980..5863845PHAGE_Roseob_SIO1: gp7; PP_05938; phage(gi9964615)4e-05Showinfo_outline
35864058..5864561PHAGE_Bacill_phiAGATE: putative dihydrofolate reductase; PP_05939; phage(gi448260875)1e-27Showinfo_outline
45864670..5865440PHAGE_Staphy_phiPV83: transposase; PP_05940; phage(gi9635722)2e-05Showinfo_outline
55865447..5866148PHAGE_Staphy_phiPV83: transposase; PP_05941; phage(gi9635722)1e-11Showinfo_outline
6complement(5866285..5867655)PROPHAGE_Escher_Sakai: protease TldD; PP_05942; phage(gi15833371)7e-13Showinfo_outline
7complement(5867717..5867866)hypothetical protein GBP346_A3025 [Burkholderia pseudomallei MSHR346] gi|237813258|ref|YP_002897709.1|; PP_059433e-21Showinfo_outline
85867894..5868418hypothetical protein BURPS1710b_2955 [Burkholderia pseudomallei 1710b] gi|76809264|ref|YP_334334.1|; PP_059443e-94Showinfo_outline
95868399..5869019molybdenum cofactor biosynthesis protein MogA [Burkholderia pseudomallei 1710b] gi|76809561|ref|YP_334335.1|; PP_059452e-112Showinfo_outline
10complement(5869294..5869899)PHAGE_Ectoca_1: EsV-1-139; PP_05946; phage(gi13242610)8e-16Showinfo_outline

Region 6, total 21 CDS

#CDS PositionBLAST HitE-ValueSequence
17208382..7208396attL0.0Showinfo_outline
2complement(7213206..7214672)PROPHAGE_Xantho_306: integrase; PP_07336; phage(gi21242250)2e-12Showinfo_outline
3complement(7214756..7214830)tRNA0.0Showinfo_outline
4complement(7214934..7216034)PHAGE_Burkho_phi1026b: gp33; PP_07337; phage(gi38707923)0.0Showinfo_outline
57216190..7216528PHAGE_Burkho_phi1026b: gp35; PP_07338; phage(gi38707925)1e-38Showinfo_outline
67216610..7216819PHAGE_Burkho_phi1026b: gp36; PP_07339; phage(gi38707926)6e-36Showinfo_outline
77216828..7217073PHAGE_Burkho_phi1026b: gp37; PP_07340; phage(gi38707927)2e-39Showinfo_outline
8complement(7217146..7218117)PHAGE_Burkho_phi1026b: gp38; PP_07341; phage(gi38707928)0.0Showinfo_outline
9complement(7218114..7218452)PHAGE_Burkho_phi1026b: gp39; PP_07342; phage(gi38707929)2e-62Showinfo_outline
10complement(7218442..7218630)PHAGE_Burkho_phi1026b: gp40; PP_07343; phage(gi38707930)2e-32Showinfo_outline
11complement(7218677..7218934)PHAGE_Burkho_phi1026b: gp41; PP_07344; phage(gi38707931)2e-44Showinfo_outline
12complement(7218931..7220859)PHAGE_Burkho_phi1026b: gp43; PP_07345; phage(gi38707933)0.0Showinfo_outline
13complement(7220874..7221152)PHAGE_Burkho_phi1026b: gp44; PP_07346; phage(gi38707934)3e-47Showinfo_outline
14complement(7221152..7221553)PHAGE_Burkho_phi1026b: gp45; PP_07347; phage(gi38707935)3e-71Showinfo_outline
15complement(7221550..7222215)PHAGE_Burkho_phi1026b: gp46; PP_07348; phage(gi38707936)5e-126Showinfo_outline
16complement(7222229..7222936)PHAGE_Burkho_phi1026b: gp47; PP_07349; phage(gi38707937)2e-132Showinfo_outline
17complement(7223210..7223767)PHAGE_Burkho_phi1026b: gp48; PP_07350; phage(gi38707938)9e-98Showinfo_outline
187224383..7225942PHAGE_Pseudo_MP22: putative tail component protein; PP_07351; phage(gi157835013)6e-08Showinfo_outline
197226113..7227132transcriptional regulator, LacI family [Burkholderia pseudomallei MSHR346] gi|237810531|ref|YP_002894982.1|; PP_073520.0Showinfo_outline
207227129..7228586PHAGE_Anguil_1: protein ORF83; PP_07353; phage(gi282174120)1e-06Showinfo_outline
217239478..7239492attR0.0Showinfo_outline
Burkholderia pseudomallei 1710a , whole genome
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 7329077 bps
Phages: 6
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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

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