Submission Results

Sequence Name: Not Available

GenBank Accession Number: WBOQ01000003.1

GenInfo (GI) Number: 0000000000

Download Results: WBOQ01000003.1.PHASTER.zip

gi|00000000|ref|WBOQ01000003.1| Bacillus sp. RM2(2019) NODE_3_length_455417_cov_7.617360, whole 455417, gc%: 35.40%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
119.7Kbincomplete4021116070-135847 info_outlinePHAGE_Bacill_vB_BhaS_171_NC_030904(6)36.18%Show info_outline
237.5Kbincomplete5022227983-265563 info_outlinePHAGE_Bacill_phi4J1_NC_029008(3)35.31%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|WBOQ01000003.1| Bacillus sp. RM2(2019) NODE_3_length_455417_cov_7.617360, whole 455417, gc%: 35.40%

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 21 CDS

#CDS PositionBLAST HitE-ValueSequence
1116070..116291PHAGE_Bacill_PfEFR_5_NC_031055: hypothetical protein; F8510_06640; phage(gi100002)1.32e-08Showinfo_outline
2116298..116522PHAGE_Bacill_phi4B1_NC_028886: hypothetical protein; F8510_06645; phage(gi971821249)3.34e-10Showinfo_outline
3116525..116860PHAGE_Bacill_vB_BhaS_171_NC_030904: DNA topoisomerase medium subunit; F8510_06650; phage(gi100004)4.63e-38Showinfo_outline
4117013..117369PHAGE_Staphy_23MRA_NC_028775: hypothetical protein; F8510_06655; phage(gi971742325)3.64e-42Showinfo_outline
5117366..119021PHAGE_Bacill_vB_BhaS_171_NC_030904: hypothetical protein; F8510_06660; phage(gi100006)0.0Showinfo_outline
6119087..120193PHAGE_Bacill_vB_BhaS_171_NC_030904: hypothetical protein; F8510_06665; phage(gi100007)0.0Showinfo_outline
7120177..120950PHAGE_Clostr_phiCTC2B_NC_030951: membrane-associated initiation of head vertex; F8510_06670; phage(gi100034)2.97e-76Showinfo_outline
8120970..122133PHAGE_Bacill_vB_BhaS_171_NC_030904: hypothetical protein; F8510_06675; phage(gi100009)0.0Showinfo_outline
9122146..122442PHAGE_Bacill_vB_BhaS_171_NC_030904: hypothetical protein; F8510_06680; phage(gi100011)2.29e-43Showinfo_outline
10122444..122794PHAGE_Bacill_vB_BhaS_171_NC_030904: hypothetical protein; F8510_06685; phage(gi100012)2.56e-36Showinfo_outline
11122796..123140PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F8510_06690; phage(gi100011)3.29e-19Showinfo_outline
12123137..123472PHAGE_Bacill_1_NC_009737: putative aminopeptidase; F8510_06695; phage(gi155042942)2.25e-27Showinfo_outline
13123473..124060PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F8510_06700; phage(gi100009)1.89e-49Showinfo_outline
14124065..124427PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F8510_06705; phage(gi100008)2.18e-09Showinfo_outline
15124660..125874PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; F8510_06710; phage(gi100007)3.46e-31Showinfo_outline
16126129..128546PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; F8510_06715; phage(gi31415859)0.0Showinfo_outline
17128588..130057PHAGE_Bacill_phi4J1_NC_029008: distal tail protein; F8510_06720; phage(gi971821575)0.0Showinfo_outline
18130054..134373PHAGE_Bacill_phi4J1_NC_029008: tail fiber; F8510_06725; phage(gi971821625)0.0Showinfo_outline
19134395..134772PHAGE_Bacill_phi4J1_NC_029008: hypothetical protein; F8510_06730; phage(gi971821601)4.59e-61Showinfo_outline
20134802..135038PHAGE_Paenib_Willow_NC_041867: hypothetical protein; F8510_06735; phage(gi100020)3.27e-24Showinfo_outline
21135038..135847PHAGE_Bacill_Stitch_NC_031032: hypothetical protein; F8510_06740; phage(gi100030)2.43e-134Showinfo_outline

Region 2, total 26 CDS

#CDS PositionBLAST HitE-ValueSequence
1227983..227994attL0.0Showinfo_outline
2236148..236159attL0.0Showinfo_outline
3complement(240756..241721)site-specific integrase; F8510_072500.0Showinfo_outline
4241835..242791PHAGE_Acidia_virus_NC_029316: AAA+ ATPase; F8510_07255; phage(gi1002166819)2.04e-05Showinfo_outline
5complement(243060..243683)trimeric intracellular cation channel family protein; F8510_072600.0Showinfo_outline
6243776..245050GTPase HflX; F8510_072650.0Showinfo_outline
7245043..246314methionine gamma-lyase family protein; F8510_072700.0Showinfo_outline
8246489..246878transcriptional repressor GlnR; F8510_072750.0Showinfo_outline
9246927..248261type I glutamate--ammonia ligase; F8510_072800.0Showinfo_outline
10complement(248598..249269)PHAGE_Staphy_29_NC_007061: ORF022; F8510_07285; phage(gi66396213)7.86e-32Showinfo_outline
11249460..249672PHAGE_Geobac_E2_NC_009552: hypothetical protein; F8510_07290; phage(gi148747756)4.33e-19Showinfo_outline
12249875..250633PHAGE_Bacill_phi4J1_NC_029008: hypothetical protein; F8510_07295; phage(gi971821578)3.16e-58Showinfo_outline
13250645..250839PHAGE_Bacill_phi4J1_NC_029008: hypothetical protein; F8510_07300; phage(gi971821640)3.15e-25Showinfo_outline
14250992..251864PHAGE_Bacill_phi4J1_NC_029008: DnaB/DnaD family replication initiation and membrane attachment protein; F8510_07305; phage(gi971821590)2.39e-118Showinfo_outline
15252272..252658PHAGE_Bacill_Gamma_NC_007458: conserved phage protein; F8510_07310; phage(gi77020164)4.50e-59Showinfo_outline
16252893..253882PHAGE_Bacill_Claudi_NC_031015: DNA polymerase; F8510_07315; phage(gi100036)2.86e-40Showinfo_outline
17254002..254844PHAGE_Mycoba_Vortex_NC_028801: gp48; F8510_07320; phage(gi971744466)5.71e-14Showinfo_outline
18255118..256014PHAGE_Bacill_Waukesha92_NC_025424: endolysin; F8510_07325; phage(gi712912403)1.25e-95Showinfo_outline
19256076..256306PHAGE_Paenib_Vegas_NC_028767: bacteriocin biosynthesis protein; F8510_07330; phage(gi971741598)1.37e-26Showinfo_outline
20256671..256994PadR family transcriptional regulator; F8510_073350.0Showinfo_outline
21256987..257529DUF1700 domain-containing protein; F8510_073400.0Showinfo_outline
22257530..258333DUF4097 domain-containing protein; F8510_073450.0Showinfo_outline
23complement(258426..259046)PHAGE_Deep_s_D6E_NC_019544: transcriptional regulator; F8510_07350; phage(gi423262353)2.52e-21Showinfo_outline
24259140..259151attR0.0Showinfo_outline
25259188..259844PHAGE_Entero_EFC_1_NC_025453: site-specific integrase; F8510_07355; phage(gi725950572)2.80e-05Showinfo_outline
26265563..265574attR0.0Showinfo_outline
Bacillus sp. RM2(2019) NODE_3_length_455417_cov_7
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 455417 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