Submission Results

Sequence Name: Not Available

GenBank Accession Number: WNLC01000026.1

GenInfo (GI) Number: 0000000000

Download Results: WNLC01000026.1.PHASTER.zip

gi|00000000|ref|WNLC01000026.1| Pectobacterium carotovorum subsp. carotovorum strain 15 contig026, 449469, gc%: 52.38%

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
135.7Kbintact15044230896-266644 info_outlinePHAGE_Salmon_118970_sal3_NC_031940(12)47.59%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|WNLC01000026.1| Pectobacterium carotovorum subsp. carotovorum strain 15 contig026, 449469, gc%: 52.38%

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 46 CDS

#CDS PositionBLAST HitE-ValueSequence
1230896..230942attL0.0Showinfo_outline
2231109..231345PHAGE_Entero_phi80_NC_021190: DinI family protein; GJS26_03013; phage(gi824479607)5.90e-29Showinfo_outline
3complement(231628..232197)PHAGE_Pectob_ZF40_NC_019522: hypothetical protein; GJS26_03014; phage(gi422936708)3.79e-117Showinfo_outline
4complement(232209..234152)PHAGE_Pectob_ZF40_NC_019522: putative tail-fiber protein; GJS26_03015; phage(gi422936707)0.0Showinfo_outline
5complement(234214..235602)PHAGE_Entero_T1_NC_005833: putative tail fiber; GJS26_03016; phage(gi45686334)1.50e-53Showinfo_outline
6complement(235605..236474)PHAGE_Pectob_ZF40_NC_019522: hypothetical protein; GJS26_03017; phage(gi422936704)2.09e-21Showinfo_outline
7complement(236471..237616)PHAGE_Shigel_SfIV_NC_022749: baseplate protein; GJS26_03018; phage(gi557307544)6.72e-43Showinfo_outline
8complement(237606..238058)PHAGE_Entero_SfV_NC_003444: tail protein; GJS26_03019; phage(gi19549008)1.17e-15Showinfo_outline
9complement(238055..238651)PHAGE_Salmon_ST64B_NC_004313: putative base plate assembly protein; GJS26_03020; phage(gi23505463)1.07e-23Showinfo_outline
10complement(238648..239712)PHAGE_Salmon_ST64B_NC_004313: Tail protein; GJS26_03021; phage(gi23505462)5.38e-40Showinfo_outline
11complement(239709..241070)PHAGE_Salmon_ST64B_NC_004313: tail/DNA circulation protein; GJS26_03022; phage(gi23505461)8.72e-31Showinfo_outline
12complement(241128..241928)PHAGE_Vibrio_X29_NC_024369: major capsid E family protein; GJS26_03023; phage(gi658311226)2.41e-31Showinfo_outline
13complement(242030..242437)PHAGE_Bacter_Lily_NC_028841: hypothetical protein; GJS26_03024; phage(gi971748258)9.78e-19Showinfo_outline
14complement(242434..243012)Eukaryotic translation initiation factor 3 subunit; GJS26_030250.0Showinfo_outline
15complement(243014..243883)PHAGE_Entero_HK225_NC_019717: head maturation protease C; GJS26_03026; phage(gi428782381)1.71e-54Showinfo_outline
16complement(243880..245529)PHAGE_Xylell_Sano_NC_042344: HNH homing endonuclease; GJS26_03027; phage(gi100129)1.30e-87Showinfo_outline
17complement(245529..245780)hypothetical protein; GJS26_030280.0Showinfo_outline
18complement(245790..247916)PHAGE_Faecal_FP_Toutatis_NC_047915: tail assembly protein; GJS26_03029; phage(gi100053)3.77e-109Showinfo_outline
19complement(247864..248442)hypothetical protein; GJS26_030300.0Showinfo_outline
20complement(248709..249353)PHAGE_Rhodob_RcRhea_NC_028954: minor tail protein; GJS26_03031; phage(gi971760207)2.35e-23Showinfo_outline
21complement(249413..249709)hypothetical protein; GJS26_030320.0Showinfo_outline
22complement(249939..250136)PHAGE_Pectob_ZF40_NC_019522: hypothetical protein; GJS26_03033; phage(gi422936678)1.52e-35Showinfo_outline
23250453..250695hypothetical protein; GJS26_030340.0Showinfo_outline
24complement(250708..251250)PHAGE_Salmon_SP_076_NC_021782: lysis protein; GJS26_03035; phage(gi525972791)8.38e-46Showinfo_outline
25complement(251247..251687)PHAGE_Salmon_SEN5_NC_028701: lysin; GJS26_03036; phage(gi966201565)5.67e-70Showinfo_outline
26complement(251671..252012)PHAGE_Erwini_phiEt88_NC_015295: holin; GJS26_03037; phage(gi327198627)7.00e-17Showinfo_outline
27complement(252119..252985)Nuclease; GJS26_030380.0Showinfo_outline
28253261..254082hypothetical protein; GJS26_030390.0Showinfo_outline
29254104..254589hypothetical protein; GJS26_030400.0Showinfo_outline
30complement(254610..254957)PHAGE_Shigel_SfIV_NC_022749: antitermination Q; GJS26_03041; phage(gi557307572)6.26e-37Showinfo_outline
31complement(254950..255975)PHAGE_Shigel_SfIV_NC_022749: hypothetical protein; GJS26_03042; phage(gi557307571)8.84e-102Showinfo_outline
32complement(255975..256280)hypothetical protein; GJS26_030430.0Showinfo_outline
33complement(256274..256654)PHAGE_Salmon_118970_sal3_NC_031940: hypothetical protein; GJS26_03044; phage(gi100062)3.80e-56Showinfo_outline
34complement(256651..257322)PHAGE_Salmon_118970_sal3_NC_031940: hypothetical protein; GJS26_03045; phage(gi100061)2.41e-105Showinfo_outline
35complement(257319..258341)PHAGE_Shigel_SfIV_NC_022749: replication protein; GJS26_03046; phage(gi557307567)8.03e-80Showinfo_outline
36complement(258710..259183)PHAGE_Shigel_SfIV_NC_022749: DNA binding transcriptional regulator; GJS26_03047; phage(gi557307565)2.23e-14Showinfo_outline
37complement(259299..259508)PHAGE_Salmon_g341c_NC_013059: Cro; GJS26_03048; phage(gi255252725)1.53e-10Showinfo_outline
38complement(260453..260995)hypothetical protein; GJS26_030490.0Showinfo_outline
39complement(261004..261105)hypothetical protein; GJS26_030500.0Showinfo_outline
40261651..262193PHAGE_Shigel_SfIV_NC_022749: hypothetical protein; GJS26_03051; phage(gi557307558)4.72e-51Showinfo_outline
41262186..263001PHAGE_Burkho_KS9_NC_013055: chromosome partitioning protein gp35; GJS26_03052; phage(gi255033718)1.56e-80Showinfo_outline
42262998..263477PHAGE_Gordon_Nymphadora_NC_031061: capsid maturation protease; GJS26_03053; phage(gi100067)3.35e-62Showinfo_outline
43263479..263814PHAGE_Erwini_vB_EhrS_59_NC_048198: hypothetical protein; GJS26_03054; phage(gi100038)1.31e-30Showinfo_outline
44264142..265161hypothetical protein; GJS26_030550.0Showinfo_outline
45complement(265279..266502)PHAGE_Pseudo_PPpW_3_NC_023006: putative integrase family protein; GJS26_03056; phage(gi564292506)2.70e-41Showinfo_outline
46266644..266690attR0.0Showinfo_outline
Pectobacterium carotovorum subsp. carotovorum strain 15 contig026
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 449469 bps
Phages: 1
arrow_upwardarrow_upwardarrow_upward
Click on a region in the genome above to show details here.
Viewer Options
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