Submission Results

Sequence Name: Actinobacillus pleuropneumoniae serovar 1 str. 4074, whole genome

GenBank Accession Number: AACK00000000.1

GenInfo (GI) Number: 30027609

Download Results:

gi|30027609|ref|AACK00000000| Actinobacillus pleuropneumoniae serovar 1 str. 4074 .2292348, gc%: 41.38%

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
128Kbintact150301230533-1258624 info_outlinePHAGE_Salmon_E142.54%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|30027609|ref|AACK00000000| Actinobacillus pleuropneumoniae serovar 1 str. 4074 [asmbl_id: NC_000000].2292348, gc%: 41.38%

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 30 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1230533..1231126)PHAGE_Emilia_86: putative ribonuclease; PP_01160; phage(gi73852875)3e-33Showinfo_outline
2complement(1231149..1232183)GTPase EngC [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|190149401|ref|YP_001967926.1|; PP_011610.0Showinfo_outline
31232693..1233583PHAGE_Burkho_phi1026b: gp58; PP_01162; phage(gi38707948)2e-25Showinfo_outline
41233583..1233957nucleotidase [Actinobacillus pleuropneumoniae serovar 5b str. L20] gi|126207620|ref|YP_001052845.1|; PP_011638e-62Showinfo_outline
51234147..1234521PHAGE_Gifsy_2: bacteriophage lysis protein; holin; PP_01164; phage(gi169257295)6e-17Showinfo_outline
61234676..1235140PHAGE_Deftia_14: gp5 baseplate hub subunit and tail lysozyme; PP_01165; phage(gi282599019)2e-25Showinfo_outline
71235144..1235509PHAGE_Cronob_ENT47670: hypothetical protein; PP_01166; phage(gi431810528)3e-06Showinfo_outline
81235831..1236352PHAGE_Escher_P13374: antirepressor; PP_01167; phage(gi410491647)2e-25Showinfo_outline
91236515..1237135PHAGE_Pseudo_OBP: putative homing nuclease; PP_01168; phage(gi371671534)1e-10Showinfo_outline
101237435..1237557PHAGE_Acinet_AP22: putative phage terminase small subunit; PP_01169; phage(gi388570782)6e-06Showinfo_outline
111237550..1238773PHAGE_Pseudo_phi297: terminase large subunit; PP_01170; phage(gi374531285)2e-148Showinfo_outline
121239226..1240122PHAGE_Salmon_E1: putative portal protein; PP_01171; phage(gi170676280)4e-56Showinfo_outline
131240097..1241008PHAGE_Salmon_E1: putative head assembly protein; PP_01172; phage(gi170676281)8e-38Showinfo_outline
141241005..1242360PHAGE_Salmon_E1: hypothetical protein VIP0015; PP_01173; phage(gi170676291)4e-74Showinfo_outline
151242360..1242797PHAGE_Salmon_E1: putative capsid decoration protein; PP_01174; phage(gi170676292)3e-27Showinfo_outline
161242807..1243862PHAGE_Salmon_E1: putative coat protein; PP_01175; phage(gi170676293)7e-100Showinfo_outline
171243906..1244121hypothetical; PP_011760.0Showinfo_outline
181244127..1244492PHAGE_Cronob_ENT47670: hypothetical protein; PP_01177; phage(gi431810531)1e-16Showinfo_outline
191244495..1244857PHAGE_Salmon_E1: hypothetical protein VIP0025; PP_01178; phage(gi170676301)4e-24Showinfo_outline
201245206..1245577PHAGE_Salmon_E1: hypothetical protein VIP0027; PP_01179; phage(gi170676303)2e-09Showinfo_outline
211245587..1246087PHAGE_Salmon_E1: major tail subunit; PP_01180; phage(gi170676305)1e-24Showinfo_outline
221246120..1246791PHAGE_Salmon_E1: hypothetical protein VIP0032; PP_01181; phage(gi170676308)1e-33Showinfo_outline
231247045..1247647ABC-type antimicrobial peptide transport system, ATPase component [Mannheimia haemolytica USDA-ARS-USMARC-183] gi|472333533|ref|YP_007665808.1|; PP_011823e-73Showinfo_outline
241247962..1248828PHAGE_Salmon_epsilon34: Ant; PP_01183; phage(gi221328691)4e-67Showinfo_outline
251248895..1251522PHAGE_Salmon_E1: putative tail protein (tape measure); PP_01184; phage(gi170676309)3e-82Showinfo_outline
261251526..1251855PHAGE_Gifsy_1: bacteriophage tail tip assembly protein; Lambda gpM homolog; PP_01185; phage(gi169257220)2e-12Showinfo_outline
271251852..1252562PHAGE_Entero_HK630: minor tail protein L; PP_01186; phage(gi428782805)4e-61Showinfo_outline
281252566..1253312PHAGE_Entero_4795: putative tail fiber component; PP_01187; phage(gi157166055)2e-70Showinfo_outline
291253345..1253890PHAGE_Salmon_1: putative bacteriophage tail assembly protein I; Lambda gpI homolog; PP_01188; phage(gi169257201)1e-32Showinfo_outline
301253939..1258624PHAGE_Gifsy_1: bacteriophage host specificity protein; tail fiber; Lambda gpJ homolog; PP_01189; phage(gi169257216)2e-180Showinfo_outline
Actinobacillus pleuropneumoniae serovar 1 str. 4074
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 2292348 bps
Phages: 1
Click on a region in the genome above to show details here.
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Click on a sequence to see details.
Portal Protein
Coat Protein
Tail Shaft
Attachment Site
Phage-like Protein
Hypotheical Protein
Fiber Protein
Plate Protein

Download data as .txt file: png_input file_download