Submission Results

Sequence Name: Not Available

GenBank Accession Number: VLKV01000012.1

GenInfo (GI) Number: 0000000000

Download Results: VLKV01000012.1.PHASTER.zip

gi|00000000|ref|VLKV01000012.1| Extensimonas vulgaris strain CGMCC 1.10977 72653, gc%: 64.11%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
134.7Kbintact1504027585-62374 info_outlinePHAGE_Synech_S_CBS1_NC_016164(4)64.36%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|VLKV01000012.1| Extensimonas vulgaris strain CGMCC 1.10977 72653, gc%: 64.11%

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 40 CDS

#CDS PositionBLAST HitE-ValueSequence
127585..28901PHAGE_Psychr_pOW20_A_NC_020841: DNA methylase; IP95_02423; phage(gi472339820)1.26e-83Showinfo_outline
228850..29473PHAGE_Clostr_phiCD146_NC_028958: hypothetical protein; IP95_02424; phage(gi971820170)4.81e-10Showinfo_outline
3complement(29470..30108)uncharacterized protein DUF3489; IP95_024250.0Showinfo_outline
4complement(30185..30451)hypothetical protein; IP95_024260.0Showinfo_outline
530559..31107hypothetical protein; IP95_024270.0Showinfo_outline
631107..33071PHAGE_Synech_S_CBS1_NC_016164: large terminase subunit; IP95_02428; phage(gi356870795)7.68e-135Showinfo_outline
733084..33575PHAGE_Sinorh_phiN3_NC_028945: capsid-related protein; IP95_02429; phage(gi971758981)1.19e-35Showinfo_outline
833575..33967PHAGE_Nitrin_1M3_16_NC_024217: putative tail protein; IP95_02430; phage(gi643655225)1.46e-05Showinfo_outline
933967..34188hypothetical protein; IP95_024310.0Showinfo_outline
1034191..35714PHAGE_Synech_S_CBS1_NC_016164: lambda-like phage portal protein; IP95_02432; phage(gi356870797)9.87e-71Showinfo_outline
11complement(35701..35982)ParE-like toxin of type II ParDE toxin-antitoxin system; IP95_024330.0Showinfo_outline
12complement(35979..36212)ParD-like antitoxin of type II ParDE toxin-antitoxin system; IP95_024340.0Showinfo_outline
1336289..37596PHAGE_Burkho_phiE125_NC_003309: putative capsid assembly protein/protease; IP95_02435; phage(gi17975166)7.76e-59Showinfo_outline
1437600..37977PHAGE_Aurant_AmM_1_NC_027334: head decoration protein D; IP95_02436; phage(gi849119857)9.85e-08Showinfo_outline
1538053..39075PHAGE_Vibrio_vB_VpaM_MAR_NC_019722: hypothetical protein; IP95_02437; phage(gi428782731)2.11e-99Showinfo_outline
1639075..39353hypothetical protein; IP95_024380.0Showinfo_outline
1739364..39795PHAGE_Synech_S_CBS1_NC_016164: hypothetical protein; IP95_02439; phage(gi356870805)5.78e-08Showinfo_outline
1839803..40006hypothetical protein; IP95_024400.0Showinfo_outline
1940009..40761PHAGE_Stenot_vB_SmaS_DLP_5_NC_042082: hypothetical protein; IP95_02441; phage(gi100014)3.65e-74Showinfo_outline
2040761..41162PHAGE_Pseudo_JBD18_NC_027986: clamp-loader subunit; IP95_02442; phage(gi100041)8.46e-05Showinfo_outline
2141350..41994hypothetical protein; IP95_024430.0Showinfo_outline
22complement(41995..42492)acetyltransferase (GNAT) family protein; IP95_024440.0Showinfo_outline
23complement(42489..42770)uncharacterized protein (DUF1778 family); IP95_024450.0Showinfo_outline
2442863..45559PHAGE_Synech_S_CBS1_NC_016164: tail tape measure protein; IP95_02446; phage(gi356870809)1.43e-32Showinfo_outline
2545565..46635PHAGE_Salmon_118970_sal1_NC_031930: membrane-associated initiation of head vertex; IP95_02447; phage(gi100034)1.61e-06Showinfo_outline
2646632..48194PHAGE_Burkho_KL1_NC_018278: hypothetical protein; IP95_02448; phage(gi399528735)9.78e-12Showinfo_outline
2748197..49018PHAGE_Pseudo_PaMx11_NC_028770: putative virion structural protein; IP95_02449; phage(gi971741797)2.44e-36Showinfo_outline
2849037..49264PHAGE_Pseudo_PaMx74_NC_028809: putative virion structural protein; IP95_02450; phage(gi971745300)9.76e-25Showinfo_outline
2949261..49467PHAGE_Pseudo_YuA_NC_010116: hypothetical protein; IP95_02451; phage(gi162135157)4.32e-13Showinfo_outline
3049467..51740PHAGE_Pseudo_PaMx11_NC_028770: virion structural protein; IP95_02452; phage(gi971741800)1.68e-149Showinfo_outline
3151740..52090PHAGE_Pseudo_PaMx28_NC_028931: virion structural protein; IP95_02453; phage(gi971757103)6.11e-39Showinfo_outline
3252156..52461PHAGE_Rhizob_vB_RleS_L338C_NC_023502: hypothetical protein; IP95_02454; phage(gi588498690)1.01e-18Showinfo_outline
3352458..52934PHAGE_Liberi_SC1_NC_019549: hypothetical protein; IP95_02455; phage(gi423262467)2.43e-06Showinfo_outline
3452934..53386PHAGE_Bacill_B103_NC_004165: morphogenesis protein; IP95_02456; phage(gi22855163)5.84e-22Showinfo_outline
3553487..53969PHAGE_Gordon_Nymphadora_NC_031061: sliding clamp DNA polymerase; IP95_02457; phage(gi100042)4.84e-23Showinfo_outline
36complement(53926..54756)PHAGE_Gordon_Nymphadora_NC_031061: RNA polymerase binding protein; IP95_02458; phage(gi100043)1.95e-25Showinfo_outline
37complement(54786..57470)PHAGE_Prochl_P_TIM68_NC_028955: putative head completion protein; IP95_02459; phage(gi971760230)4.80e-05Showinfo_outline
38complement(57460..58320)site-specific DNA-methyltransferase (adenine-specific)/adenine-specific DNA-methyltransferase; IP95_024600.0Showinfo_outline
39complement(59001..59453)PHAGE_Entero_vB_EcoM_FV3_NC_019517: putative adenine methyltransferase; IP95_02461; phage(gi422936536)3.10e-06Showinfo_outline
40complement(59453..62374)PHAGE_Bacill_0305phi8_36_NC_009760: PcrA helicase; IP95_02462; phage(gi156564011)1.64e-45Showinfo_outline
Extensimonas vulgaris strain CGMCC 1
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 72653 bps
Phages: 1
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Click on a region in the genome above to show details here.
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Click on a sequence to see details.
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