Submission Results

Sequence Name: Not Available

GenBank Accession Number: PRLG01000020.1

GenInfo (GI) Number: 0000000000

Download Results: PRLG01000020.1.PHASTER.zip

gi|00000000|ref|PRLG01000020.1| Paenibacillus illinoisensis strain E3 709621, gc%: 44.55%

Download summary as .txt file: summary.txt file_download

Total: 3 prophage regions have been identified, of which 0 regions are intact, 3 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
111.6Kbincomplete3017283564-295204 info_outlinePHAGE_Brevib_Sundance_NC_028749(4)36.53%Show info_outline
225.7Kbincomplete4011354922-380650 info_outlinePHAGE_Geobac_E3_NC_029073(5)36.81%Show info_outline
348.8Kbincomplete4028368123-417015 info_outlinePHAGE_Brevib_Sundance_NC_028749(9)38.10%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|PRLG01000020.1| Paenibacillus illinoisensis strain E3 709621, gc%: 44.55%

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 17 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(283564..285600)PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03356; phage(gi971482698)0.0Showinfo_outline
2complement(285651..285785)hypothetical protein; PIL02S_033570.0Showinfo_outline
3complement(285805..286134)PHAGE_Bacill_Bcp1_NC_024137: hypothetical protein; PIL02S_03358; phage(gi640884073)2.82e-08Showinfo_outline
4complement(286196..286447)Uncharacterized protein; PIL02S_033590.0Showinfo_outline
5complement(286534..286686)hypothetical protein; PIL02S_033600.0Showinfo_outline
6complement(286698..287564)PHAGE_Brevib_Sundance_NC_028749: putative DNA primase; PIL02S_03361; phage(gi971482683)2.06e-32Showinfo_outline
7complement(287754..289223)PHAGE_Brevib_Sundance_NC_028749: putative replicative DNA helicase; PIL02S_03362; phage(gi971482685)3.39e-21Showinfo_outline
8complement(289299..289838)PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03363; phage(gi971482686)5.95e-12Showinfo_outline
9complement(289905..290747)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; PIL02S_03364; phage(gi9630242)1.40e-78Showinfo_outline
10complement(290933..291154)PHAGE_Entero_EFDG1_NC_029009: hypothetical protein; PIL02S_03365; phage(gi971765182)1.48e-09Showinfo_outline
11complement(291244..292092)PHAGE_Ralsto_RSP15_NC_030948: head completion protein; PIL02S_03366; phage(gi100195)1.30e-57Showinfo_outline
12complement(292244..292729)hypothetical protein; PIL02S_033670.0Showinfo_outline
13complement(292976..293263)Uncharacterized protein; PIL02S_033680.0Showinfo_outline
14complement(293305..293556)hypothetical protein; PIL02S_033690.0Showinfo_outline
15complement(293591..293935)Uncharacterized protein; PIL02S_033700.0Showinfo_outline
16complement(293977..294480)putative hydrolase Metallo-beta-lactamase superfamily; PIL02S_033710.0Showinfo_outline
17complement(294509..295204)PHAGE_Rhodoc_Trina_NC_042040: head completion protein; PIL02S_03372; phage(gi100195)7.75e-15Showinfo_outline

Region 2, total 13 CDS

#CDS PositionBLAST HitE-ValueSequence
1354922..354933attL0.0Showinfo_outline
2complement(355134..356174)PHAGE_Geobac_E3_NC_029073: integrase/recombinase-like protein; PIL02S_03489; phage(gi985758484)7.31e-44Showinfo_outline
3356324..356572hypothetical protein; PIL02S_034900.0Showinfo_outline
4356614..359211PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; PIL02S_03491; phage(gi9630188)0.0Showinfo_outline
5359366..359641PHAGE_Geobac_E3_NC_029073: hypothetical protein; PIL02S_03492; phage(gi985758341)1.02e-41Showinfo_outline
6359782..359958Uncharacterized protein; PIL02S_034930.0Showinfo_outline
7359963..361144PHAGE_Geobac_E3_NC_029073: DNA PolI-like protein; PIL02S_03494; phage(gi985758344)8.35e-30Showinfo_outline
8361303..362358PHAGE_Geobac_E3_NC_029073: hypothetical protein; PIL02S_03495; phage(gi985758348)1.61e-11Showinfo_outline
9362527..362916PHAGE_Bacill_Slash_NC_022774: terminase large subunit; PIL02S_03496; phage(gi609217102)2.73e-06Showinfo_outline
10362968..363798PHAGE_Bacill_0305phi8_36_NC_009760: mobile intron protein; PIL02S_03497; phage(gi156564021)1.45e-29Showinfo_outline
11364046..365365Uncharacterized protein; PIL02S_034980.0Showinfo_outline
12365381..366958PHAGE_Geobac_E3_NC_029073: putative portal protein; PIL02S_03499; phage(gi985758350)2.50e-09Showinfo_outline
13380650..380661attR0.0Showinfo_outline

Region 3, total 30 CDS

#CDS PositionBLAST HitE-ValueSequence
1368123..368136attL0.0Showinfo_outline
2378835..379836PHAGE_Geobac_E3_NC_029073: integrase-like protein; PIL02S_03516; phage(gi985758364)4.64e-144Showinfo_outline
3379851..380339hypothetical protein; PIL02S_035170.0Showinfo_outline
4380380..380793PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03518; phage(gi971482584)4.73e-24Showinfo_outline
5380876..382405PHAGE_Bacill_SPbeta_NC_001884: putative transglycosylase; PIL02S_03519; phage(gi9630157)4.76e-48Showinfo_outline
6382531..383568PHAGE_Mycoba_Seagreen_NC_028813: DNA endonuclease; PIL02S_03520; phage(gi971745615)1.48e-17Showinfo_outline
7389166..392663PHAGE_Brevib_Sundance_NC_028749: putative minor structural protein; PIL02S_03526; phage(gi971482589)4.26e-60Showinfo_outline
8392745..393497Ankyrin; PIL02S_035270.0Showinfo_outline
9complement(393551..394003)PHAGE_Bacill_BM5_NC_029069: hypothetical protein; PIL02S_03528; phage(gi985757869)2.48e-08Showinfo_outline
10394211..394591hypothetical protein; PIL02S_035290.0Showinfo_outline
11394578..396161PHAGE_Lactob_LfeInf_NC_029058: hypothetical protein; PIL02S_03530; phage(gi985757280)3.21e-61Showinfo_outline
12396274..396957PHAGE_Geobac_E3_NC_029073: hypothetical protein; PIL02S_03531; phage(gi985758366)5.50e-08Showinfo_outline
13396905..397114Uncharacterized protein; PIL02S_035320.0Showinfo_outline
14397327..397812PHAGE_Entero_933W_NC_000924: hypothetical protein; PIL02S_03533; phage(gi9632489)4.58e-17Showinfo_outline
15397809..398837PHAGE_Entero_Min27_NC_010237: serine/threonine kinase; PIL02S_03534; phage(gi170783632)7.96e-71Showinfo_outline
16398890..399081Uncharacterized protein; PIL02S_035350.0Showinfo_outline
17399437..399622hypothetical protein; PIL02S_035360.0Showinfo_outline
18399641..400138PHAGE_Bacill_phi4B1_NC_028886: GNAT family acetyltransferase; PIL02S_03537; phage(gi971821284)8.06e-35Showinfo_outline
19complement(400505..400663)hypothetical protein; PIL02S_035380.0Showinfo_outline
20400872..401507PHAGE_Brevib_Sundance_NC_028749: putative head decoration protein; PIL02S_03539; phage(gi971482587)4.52e-35Showinfo_outline
21401516..402154PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03540; phage(gi971482588)3.98e-22Showinfo_outline
22402163..402636PHAGE_Brevib_Sundance_NC_028749: putative PAAR repeat-containing protein; PIL02S_03541; phage(gi971482590)9.22e-05Showinfo_outline
23402654..403814PHAGE_Brevib_Sundance_NC_028749: putative excinuclease ABC; PIL02S_03542; phage(gi971482591)9.28e-72Showinfo_outline
24403904..404317PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03543; phage(gi971482592)5.01e-19Showinfo_outline
25404373..404987PHAGE_Brevib_Sundance_NC_028749: hypothetical protein; PIL02S_03544; phage(gi971482593)8.83e-39Showinfo_outline
26405002..407095PHAGE_Brevib_Sundance_NC_028749: putative F5/8 type C domain-containing protein; PIL02S_03545; phage(gi971482602)1.94e-13Showinfo_outline
27407130..409967PHAGE_Brevib_Jenst_NC_028805: hypothetical protein; PIL02S_03546; phage(gi971744894)1.24e-33Showinfo_outline
28410063..410524PHAGE_Paenib_Tripp_NC_028930: holin; PIL02S_03547; phage(gi971756978)6.84e-25Showinfo_outline
29410571..411611PHAGE_Geobac_E3_NC_029073: hypothetical protein; PIL02S_03548; phage(gi985758347)1.18e-18Showinfo_outline
30417015..417028attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 709621 bps
Phages: 3
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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