Submission Results

Sequence Name: Not Available

GenBank Accession Number: VYJT01000010.1

GenInfo (GI) Number: 0000000000

Download Results: VYJT01000010.1.PHASTER.zip

gi|00000000|ref|VYJT01000010.1| Streptococcus agalactiae strain GNUCH_SAga_26, whole genome 180844, gc%: 37.62%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
151.4Kbintact100414891-56357 info_outlinePHAGE_Strept_phiARI0131_2_NC_031941(7)40.84%Show info_outline
241.9Kbintact13049138234-180217 info_outlinePHAGE_Strept_P9_NC_009819(19)34.42%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|VYJT01000010.1| Streptococcus agalactiae strain GNUCH_SAga_26, whole genome 180844, gc%: 37.62%

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 43 CDS

#CDS PositionBLAST HitE-ValueSequence
14891..4902attL0.0Showinfo_outline
2complement(5059..6564)PHAGE_Cronob_phiES15_NC_018454: putative protein kinase; F3159_07090; phage(gi401817584)2.62e-12Showinfo_outline
3complement(6578..7351)hypothetical protein; F3159_070950.0Showinfo_outline
4complement(7421..8725)PHAGE_Bacill_WBeta_NC_007734: putative site-specific recombinase; F3159_07100; phage(gi85701406)1.89e-35Showinfo_outline
5complement(8670..9911)PHAGE_Clostr_phiCTC2B_NC_030951: protector from prophage-induced early lysis; F3159_07105; phage(gi100001)1.68e-27Showinfo_outline
6complement(10219..10326)putative holin-like toxin; F3159_071100.0Showinfo_outline
7complement(10462..11868)PHAGE_Strept_315.4_NC_004587: putative cell wall hydrolase, lysin; F3159_07115; phage(gi28876322)8.13e-38Showinfo_outline
8complement(11870..12268)PHAGE_Clostr_vB_CpeS_CP51_NC_021325: putative holin; F3159_07120; phage(gi509140062)2.76e-26Showinfo_outline
9complement(12286..14142)PHAGE_Strept_T12_NC_028700: putative structural protein; F3159_07125; phage(gi966201536)3.53e-152Showinfo_outline
10complement(14155..17070)PHAGE_Strept_phiARI0131_2_NC_031941: DNA topoisomerase II large subunit; F3159_07130; phage(gi100005)1.93e-107Showinfo_outline
11complement(17070..17795)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07135; phage(gi100006)9.74e-103Showinfo_outline
12complement(17792..20911)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07140; phage(gi100007)0.0Showinfo_outline
13complement(21206..21625)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07145; phage(gi100008)9.86e-61Showinfo_outline
14complement(21637..22206)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07150; phage(gi100009)2.88e-67Showinfo_outline
15complement(22209..22535)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07155; phage(gi100010)7.71e-11Showinfo_outline
16complement(22544..22912)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F3159_07160; phage(gi100011)2.43e-21Showinfo_outline
17complement(22905..23243)head-tail adaptor protein; F3159_071650.0Showinfo_outline
18complement(23243..23500)phage gp6-like head-tail connector protein; F3159_071700.0Showinfo_outline
19complement(23497..24705)PHAGE_Burkho_KS9_NC_013055: major capsid protein gp5; F3159_07175; phage(gi255033737)9.69e-41Showinfo_outline
20complement(24719..25417)PHAGE_Geobac_E2_NC_009552: putative Clp peptidase; F3159_07180; phage(gi148747731)9.99e-53Showinfo_outline
21complement(25410..26698)PHAGE_Burkho_phi6442_NC_009235: gp4, phage portal protein, HK97 family; F3159_07185; phage(gi134288632)3.01e-63Showinfo_outline
22complement(26766..27092)hypothetical protein; F3159_071900.0Showinfo_outline
23complement(27118..27489)PHAGE_Gordon_Bantam_NC_031074: hypothetical protein; F3159_07195; phage(gi100132)6.03e-14Showinfo_outline
24complement(27486..27743)type II toxin-antitoxin system Phd/YefM family antitoxin; F3159_072000.0Showinfo_outline
25complement(27814..29406)PHAGE_Gordon_Kita_NC_031233: hypothetical protein; F3159_07205; phage(gi100002)2.15e-95Showinfo_outline
26complement(29403..29876)PHAGE_Burkho_phi1026b_NC_005284: gp1; F3159_07210; phage(gi38707891)1.02e-18Showinfo_outline
27complement(29928..30377)PHAGE_Bacill_SP_15_NC_031245: hypothetical protein; F3159_07215; phage(gi100310)1.61e-05Showinfo_outline
28complement(30388..30642)hypothetical protein; F3159_072200.0Showinfo_outline
29complement(30720..31973)PHAGE_Clostr_CDMH1_NC_024144: putative DNA methylase protein; F3159_07225; phage(gi640884928)2.14e-120Showinfo_outline
30complement(31970..33226)PHAGE_Strept_EJ_1_NC_005294: transferase; F3159_07230; phage(gi39653711)1.06e-84Showinfo_outline
31complement(33198..33653)helix-turn-helix domain-containing protein; F3159_072350.0Showinfo_outline
32complement(33942..34307)PHAGE_Bacill_phi105_NC_004167: hypothetical protein; F3159_07240; phage(gi22855043)9.79e-31Showinfo_outline
33complement(34309..35346)methionine adenosyltransferase; F3159_072450.0Showinfo_outline
34complement(35394..35576)PHAGE_Agroba_Atu_ph07_NC_042013: hypothetical protein; F3159_07250; phage(gi100594)4.17e-08Showinfo_outline
35complement(35756..36265)hypothetical protein; F3159_072550.0Showinfo_outline
36complement(36258..37634)PHAGE_Entero_phiFL4A_NC_013644: DNA helicase; F3159_07260; phage(gi281416462)1.32e-161Showinfo_outline
37complement(37615..37896)PHAGE_Endosy_APSE_1_NC_000935: hypothetical protein; F3159_07265; phage(gi9633591)6.16e-19Showinfo_outline
38complement(38247..40526)PHAGE_Lactob_A2_NC_004112: putative primase; F3159_07270; phage(gi22296557)8.37e-54Showinfo_outline
3940923..41246hypothetical protein; F3159_072750.0Showinfo_outline
4041239..42360PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; F3159_07280; phage(gi100016)7.31e-112Showinfo_outline
4142365..42928PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; F3159_07285; phage(gi100017)1.44e-68Showinfo_outline
4243159..45114PHAGE_Strept_P9_NC_009819: polymerase; F3159_07290; phage(gi157311150)0.0Showinfo_outline
4356357..56368attR0.0Showinfo_outline

Region 2, total 51 CDS

#CDS PositionBLAST HitE-ValueSequence
1138234..138245attL0.0Showinfo_outline
2complement(143075..143731)PHAGE_Plankt_PaV_LD_NC_016564: ABC transporter; F3159_07745; phage(gi371496158)9.54e-30Showinfo_outline
3complement(143741..145018)ABC transporter permease; F3159_077500.0Showinfo_outline
4145760..145921NINE protein; F3159_077550.0Showinfo_outline
5complement(146094..146303)PHAGE_Paenib_Xenia_NC_028837: transposase; F3159_07760; phage(gi971748175)2.17e-21Showinfo_outline
6complement(146429..146689)PHAGE_Bacter_Diva_NC_028788: transposase; F3159_07765; phage(gi971743567)8.40e-16Showinfo_outline
7complement(146711..146911)IS3 family transposase; F3159_077700.0Showinfo_outline
8complement(147073..147477)PHAGE_Bacter_Diva_NC_028788: transposase; F3159_07775; phage(gi971743568)1.04e-25Showinfo_outline
9147477..147743PHAGE_Strept_TP_J34_NC_020197: integrase; F3159_07780; phage(gi444475875)9.45e-26Showinfo_outline
10147746..148360PHAGE_Strept_YMC_2011_NC_018285: integrase; F3159_07785; phage(gi399498686)2.28e-72Showinfo_outline
11complement(148460..148639)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07790; phage(gi28876438)1.67e-23Showinfo_outline
12complement(148759..148959)CsbD family protein; F3159_077950.0Showinfo_outline
13complement(149115..150161)hypothetical protein; F3159_078000.0Showinfo_outline
14complement(150158..150580)PHAGE_Strept_P9_NC_009819: hypothetical protein; F3159_07805; phage(gi157311186)2.60e-12Showinfo_outline
15complement(150832..152175)PHAGE_Strept_APCM01_NC_029030: lysozyme; F3159_07810; phage(gi971767291)1.57e-83Showinfo_outline
16complement(152305..152556)PHAGE_Strept_EJ_1_NC_005294: holin; F3159_07815; phage(gi39653746)5.66e-31Showinfo_outline
17complement(152558..152848)PHAGE_Strept_315.4_NC_004587: hypothetical protein; F3159_07820; phage(gi28876324)2.73e-55Showinfo_outline
18complement(153082..153498)PHAGE_Strept_315.1_NC_004584: hypothetical protein; F3159_07825; phage(gi28876193)7.02e-18Showinfo_outline
19complement(153670..157497)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07830; phage(gi28876449)0.0Showinfo_outline
20complement(157510..158352)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07835; phage(gi28876450)1.38e-96Showinfo_outline
21complement(158365..162591)PHAGE_Strept_315.6_NC_004589: putative tail protein; F3159_07840; phage(gi28876451)0.0Showinfo_outline
22complement(162610..162840)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07845; phage(gi28876452)8.98e-22Showinfo_outline
23complement(162915..163370)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07850; phage(gi28876453)8.58e-75Showinfo_outline
24complement(163421..164053)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07855; phage(gi28876454)7.06e-88Showinfo_outline
25complement(164065..164424)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07860; phage(gi28876455)1.25e-77Showinfo_outline
26complement(164428..164772)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07865; phage(gi28876456)7.04e-71Showinfo_outline
27complement(164769..165047)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07870; phage(gi28876457)4.02e-62Showinfo_outline
28complement(165058..165414)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07875; phage(gi28876458)1.13e-57Showinfo_outline
29complement(165418..166302)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07880; phage(gi28876459)1.76e-175Showinfo_outline
30complement(166321..166896)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07885; phage(gi28876460)2.36e-106Showinfo_outline
31complement(167037..167240)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07890; phage(gi28876461)2.37e-19Showinfo_outline
32complement(167247..167435)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07895; phage(gi28876462)8.69e-23Showinfo_outline
33complement(167463..168911)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07900; phage(gi28876463)0.0Showinfo_outline
34complement(168871..170403)PHAGE_Strept_315.6_NC_004589: hypothetical protein; F3159_07905; phage(gi28876464)0.0Showinfo_outline
35complement(170419..171696)PHAGE_Strept_315.6_NC_004589: putative terminase large subunit; F3159_07910; phage(gi28876465)0.0Showinfo_outline
36complement(171686..172159)PHAGE_Strept_315.6_NC_004589: putative terminase small subunit; F3159_07915; phage(gi28876466)5.29e-86Showinfo_outline
37172221..172406PHAGE_Lactob_LBR48_NC_027990: putative toxin component; F3159_07920; phage(gi937456740)3.61e-15Showinfo_outline
38172459..172836PHAGE_Paenib_Shelly_NC_041909: endonuclease II; F3159_07925; phage(gi100065)2.57e-22Showinfo_outline
39complement(173523..173951)PHAGE_Strept_Str_PAP_1_NC_028666: hypothetical protein; F3159_07930; phage(gi966198662)7.37e-43Showinfo_outline
40complement(174339..174557)hypothetical protein; F3159_079350.0Showinfo_outline
41complement(174589..175104)PHAGE_Strept_K13_NC_024357: Lactococcus phage M3 protein; F3159_07940; phage(gi658307266)9.45e-77Showinfo_outline
42complement(175118..175564)PHAGE_Strept_phiARI0004_NC_031920: membrane-associated initiation of head vertex; F3159_07945; phage(gi100034)1.11e-68Showinfo_outline
43complement(175561..176232)PHAGE_Strept_T12_NC_028700: putative single-stranded DNA-binding protein; F3159_07950; phage(gi966201500)2.15e-150Showinfo_outline
44complement(176233..176715)PHAGE_Strept_315.4_NC_004587: hypothetical protein; F3159_07955; phage(gi28876365)1.54e-92Showinfo_outline
45176937..176948attR0.0Showinfo_outline
46complement(177019..177801)PHAGE_Strept_T12_NC_028700: putative DNA replication protein; F3159_07960; phage(gi966201496)1.99e-163Showinfo_outline
47complement(177788..178606)PHAGE_Strept_phi3396_NC_009018: putative replication protein; F3159_07965; phage(gi126011075)3.01e-61Showinfo_outline
48complement(178722..179168)PHAGE_Staphy_P954_NC_013195: hypothetical protein; F3159_07970; phage(gi257136364)1.12e-14Showinfo_outline
49179224..179604hypothetical protein; F3159_079750.0Showinfo_outline
50complement(179594..179866)hypothetical protein; F3159_079800.0Showinfo_outline
51complement(180038..180217)PHAGE_Clostr_phiCD211_NC_029048: hypothetical protein; F3159_07985; phage(gi981220865)1.01e-10Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 180844 bps
Phages: 2
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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