PHASTER

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Submission Results

Sequence Name: Not Available

GenBank Accession Number: PFHB01000066.1

GenInfo (GI) Number: 0000000000

Download Results: PFHB01000066.1.PHASTER.zip

Summary
Details
Genome Viewer

gi|00000000|ref|PFHB01000066.1| Candidatus Omnitrophica bacterium CG_4_8_14_3_um_filter_43_15 18115, gc%: 41.67%

Download summary as .txt file: summary.txt

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

Region	Region Length	Completeness	Score	# Total Proteins	Region Position	Most Common Phage	GC %	Details
1	5.6Kb	incomplete	10	7	6015-11700	PHAGE_Dinoro_vB_DshS_R5C_NC_041921(2)	42.40%	Show

Region DNA

>1	 6015-11700
ATGAAATATAAAAAGAGCCTTGGAAGGATTATTGCCATAGGCGCTATTTTTTTATTTATT
GTTTTAACCAGGTATTTGCCTTCTGATCAAAAAGATGTTTCCGGGCATGCTGCTTGGGTT
AAGAGGGTGATCGACGGGGATACTATTGTGCTTGGTAATAATGAAAGAGTTAGGTATATC
GGCGTAAATACTCCGGAAACACATCATCCTAAAAAAGGCATTGAATATTACGGCCCTGAA
GCAGCGGATTTTAATAAAAAACTTGTTTTGGGTAAAAATGTAAGGCTTGAATTTGACGTA
GAAAAATATGATAAATATGGCCGCACACTTGCCTATGTATATCTAGGGGATGGGATTTTT
GTCAATGCCGAGCTTGTAAAGTTAGGATATGCGCGCGTTATGAGCATAAGGCCTAATACA
AGATATTCTGAGTTGTTTAAAAGGTTACAGCAAGAGGCAAAGACAAAAAGACTTGGTTTG
TGGGCAAAATAGTGTTATAATAATATAGAAGTCGTCCCTCGTGACTAAACGAGATAGCTG
GTCACTCGGGACGAAATTTTTGCTTTGCAAAAATTTCGCGGAAGTGGCGGAACTGGCATA
CGCGTACGCCTCAGAAGCGTATGGGGCAACCCTTGAGAGTTCAAATCTCTCCTTCCGCAC
CATTGCTTTTTGGGGCCTTTTATGGTATAATAATAGGTCTTATGGCTCAGAACATAGTAG
TTACTAACAGAGAGGCCAGGAAAGACTATAATATACTTTGGACCCTTGAGGCCGGTATAC
AGCTTCAGGGGTGCGAGGTTAAGTCATTAAGGGAGCATAACGCCAATTTAAAGGGTAGTT
TTGCCCATTTTGATAAAAATAGCAATTTAGTGCTATATAATATGCATATAGCGCCTTATC
AGCAGGCCGGCATTACAAGCCCTGAGCCGTTAAGGCCCAGGATGCTGTTATTACATAAGA
CAGAGATAAAGCGCCTGCAGGGTGAGTTAAACCAAAAAGGCCTGACTTTAATACCTTTGA
AGGCGTATTTTAACAAAAGAGGCCTTGTTAAGGTTGAGCTTGGGCTGAGTAAAGGCAAAA
AGTCGTACGATAAGCGTGAGGATATAAAAAAGCGCGAGCACAACAGGCAGATGCAACGGG
CTGTGCGTAAATAATTTGTTTCTTTGAAAATTTGGGGGTGAAAGGTTTCGACTCTTGCTA
GCCGGGAGTAAGGTGGCATACCGAGGTTGGTCGGTTGGCCTCGATAAAAACCGACTACTA
TTAAATGCTAACGACTACAATCCAGTAGCCGAGGCCGAAGCTATTTTAGCTGAGGCTCAA
TTGGCACATGTTGCTGCACCTATGGGTGCAGCCCTTCCTGTATTCCAACCTGTGGGAATA
TAATAGGAAGTCATTAACAGGTAACCTCGCATAGTTCTTAGCCTTTAGGGCGTGCGAGTA
TTAAAAAGGCTGGCCTTGAAAAATCCTGTTTATCGGAGCGTTCTTGGCGAGATTAAAAGA
TGAACTAAGTATGTAGATGCCTTATTTTAGGGGCAAAAGGACGCGGTTTCAATACCGCCA
CCTCCACCAATTTTTCCAGTAGAATATCTTTGCTGGAAAAATTGTCCCGAGTCACCAGTT
ATTCCCTTTAGTGACGAGGGGCAAAACAGGACCTTTCTTAACGATGCAAAGGCAAATTTA
GTCCTTTCATGAAAAAAAATTTCATATATATTTTACTAATAGCTTTTAGCTTACAGCTTG
CGTTTCTTCCAGGCTGCGCTACGGTTCCTAAGGTAGCCCCGCATGCAATCTCGCCAGCCC
TGCAAGATCAGATAGTAAAAATAAATAACGTAGATTATGTCCCGCTTATAATTGTCTGCG
ACAGGTTTGATTATAAATGGTCATGGGATACTGTTGCCAGAAAAGCCGGGATACAAAATA
AAAATAATTATTTTCGTTTTTCCGAAGGCAGCAGGTTTGCGCTCACCGGCGATAAAGTTG
TAAATATGGGGTTTCCGGCAGTCATTTACCGCGGGGCATTGATGGTACCTGTATCTTTTG
CGCAGGAAAAGATAGCCGTGCAACAGGATACAGTATGCCACCCGGTGTATTCCGTAAAAA
AGGATTATCTTTTGCGCAAGGTTGTTGTGGATGCAGGCCACGGCGGCAAGGATCCCGGCG
CCATAGGCAGGTGCGGGCTGCTTGAAAAAGATGTAGCGCTTGATATAGCGATACGCCTGG
CAGATAAACTCAAAAAGGAAGGGTTTGATGTTTATCTTACCCGTTCAAGCGACAGGTTTA
TTGCCTTGTCAAAAAGGGTGCAGATAGCCAATGATAAATCAGCTGATTTTTTTGTTTCCA
TACACGTTAACGCAGCCAAGATGAAAAACGCAAAGGGCTTTGAAGTTTACTATCTGTCCG
AAGCAGCGGATGACGCCGCAAGGAAACTTGCTGAAAGTGAAAATGCAAGCTTGAAGTTTG
AAGAGGGTTCCTATCAGGTGAATTCTTCAAACAATCTGCAATGTATATTATGGGATCTGG
TTTCAACCGAAAACAGGACTGAATCAATACAATTGGCCGGGTATATTTCTGACCAGGCAA
GAAAAAGGCTTTGGGTCCGCCAGAGAGGTGTTAAGTCAGCCGGATTTTATGTATTAAAGG
GCGCGCGCATGCCGGCTATCCTGGTTGAAACGGGTTTTATTACAAATCTGGACGAAGAGG
CAAAACTTAAGAGACCGGATTACAGGGATGCGATAGCGGATGCTATTGCCAAAGGCATAC
TTGATTACAGGCAGGAGTACGAAAAAACCGAAGGATTTGCGCGATAATGGCTCAAGATAA
AAATAATCCAATAGGCGTATTTGATTCAGGCGTAGGCGGTTTGACGGTTGTCAAACAGCT
TGTAAAATATCTACCATGCGAGGATATAGTATATTTCGGCGACACAGCCAGGGTGCCTTA
CGGCACGAAATCAACAAAAACAATAGAAAGATTTTCAGTTGAAAACGCGCTTTTTCTGCT
GCGTTTTAAGGTTAAATGTATAGTTGTAGCCTGTAACACTTCCTCCAGTATCGCCCTTAA
ATTGCTGCAGGATAATTTTAAGGCCCCGATAATAGGCGTTATTGAGCCAGGGGCAAGAGA
GGCTATTTCTTCTACTAAAGCCGGCCGCATAGGCATAATAGGCACAAGCGCCACCATTTT
AAGCAAGGCGTACGAGTCCGAGCTTAAAAGAATAGCTAAAAGCGAATTTCCGCAGAAGTA
TTTGTCGCTTAAGACGGTTTCAAAAAGCTGCCCTTTGTTTGTTTCACTGGCAGAGGAGGG
GTGGCTTAATGACCCGGTTACAAAACAGGTGGCCAAGAGGTACCTTTCGGTTTTTAAACA
AAAAAAGGTTGATTCATTAATTTTAGGATGCACGCATTATCCTTTACTGAAAGATGTTAT
AGGTTCAGTCCTGGGCCGCGGCATTTGCCTGGTTGATTCAGCCAGGCAATGTGCCATAGA
AACCAAGAATGTTTTGTACAGAGAAGAGCTGTTAAATACCAAAAAACAAAAAGGCGTTCT
TAGATTTTTTGTGAGCGACGAACCTAATAAATTTGCCTCTTCAGGCAGAAAATTTTTGGG
AAGTGCTATAAAATGTATCAGGAGACATGAGGATGTTTGAGATAAGTGTTGAGGCTCAGT
TTAGCGCTGCGCATTATTTGCGCGCGTACAAAGGAAAATGCGAGAATATGCACGGCCATA
ACTGGAAGGTGCAGGTTACCTGCACCTCCAGCGAATTAAATACCCAGGGCATGGTTATGG
ATTTTTCAGGCCTGAAAAAGTCGCTGAATAAGATTTTGATGCAACTGGATCACAAGGTGT
TGAATGATGTTGCGTATTTTAAAAAGGCCAATCCCACCTCAGAGAATATAGCAAAATTTA
TTTACGATAAGCTAAATTATAAATTATTAAAAGTATCCGTTTGGGAAACAGACACATCCT
GCGCTGCCTACTATGAATAAAAAGGCCGTTGTGCTTTTGTCAGGAGGGCTTGATTCGGCA
ACCACCTTGTATTTTGCCAAAGGCAAGGGGTACAGCTGTTATTGCCTGATCTTTGATTAC
GGCCAGCGCCACAGCCGCGAGATTCAAAGCGCAAAACGTATAGCGCAAAGCGCGAAGTGT
AAATATGAAATAATAAAGATAAATTTGCCGTGGAAGGGTTCAAGCCTTTTGGATTTTAAA
AAGGCAATTCGACATAGCAGTGGTATACCAAGTACGTATGTGCCTGCGCGCAATATTATA
TTTTTGAGTTTTGCGCTGTCGTGCGCCGAGGCCATGCGCTCAAAGGCTATATTTATCGGC
GCAAACACGGTTGATTACAGCGGTTACCCTGATTGCAGGCCTGAATTTTACGCGGCTTTC
TCAAAGGCCGCAAAATTAGGCACAAAAATAGGGGTAAATAAAAGCGCCATAGAGATTTTT
ACGCCGCTTATCAATAAAACAAAATCAGATATAATAAAATTGGGAAAAAAATTAGACGTG
CCTTATCAATTGACATGGTCGTGTTACGCGGGAAAAGGCTCACCCTGCGGAAAATGCGAC
AGCTGCAGGTTCAGGGCCAAGGGTTTTAAAGAGGCAGGATTAAGGGATCCGTTATGCTAG
CAAAAATACACGAAATATTTACATCTATACAGGGCGAGGGTATTTTATCAGGCAAGCGTC
AGGTTTTTGTAAGGTTTTTTGGTTGTGGTTTTGGTTGTTCATTTTGCGATACGCCTCAAG
AGGCGCACGAAATGAAAGAATATACCGCAGAAGAGCTTCTCTCGGCAGTGTTTATAAAGG
CTCTACCCAAGAGTATACATTCGGTATCAATTACAGGAGGCGAGCCGCTTCTGCAGGCGG
ATTTTCTCAAAATATTCTTACCCAGGCTTAAACAAACCGGTTACAAGGTTTACCTTGAGA
CAAACGGCGCATTGCCGGATGAGCTGGCAAAAATAATAGATTATGTGGATATAATAGCTA
TGGATATAAAATTACCCACCTCAACCCTGGCAAAAGGCCTTTGGCAGGAGCACTCGCAGT
TTCTGGATATAGCTATGACAAAACAGGTTTTTGTAAAGATAGTTGTTACGGATAAAACTA
CGGCCTCTGATTTTAACAGGGCGGTTTTACTGGTCGCCCAAAAAAATCCATATATAGCGC
TTGTCATACAGCCTGTAACAGACCATGCCGGCCGGGTAGGGCCTTTGATGCTGGAAAGCT
TTAAGAAAATCGCCAAAGAACATATTTTAAGGGTAAAGGTTATACCCCAGATGCATAAGA
TATACGGGATAAGATGAAAGTCAAAAGTTCTTACGAGAACAGGCAAGATAAGATAAGAGG
CCTTAAGACACCTAAAATAGATGTCTGGGTAAATAAATATCCTGACAAGGAGTATACGAT
AACTTTGGATCTGCCGGAATTTACATGTATATGCCCCAAAACAGGCCTGCCTGATTTTGC
AAACATAAAAATAGAATATTCACCGGATAAATATTGCATAGAGCTAAAGTCGTTTAAATT
GTATACAATATTCTACCGCAATATCGGAATATTTCATGAGCATGTTATAAATAAAATACT
CGATGATTTTGTAAATATTTGCAAGCCCCGCCGGGTAAAGATTACAGGCGTATTCAACCC
CAGGGGCGGAATAACAACCACAGTAAGCGCGGAGTACGTAAGATGA

Region Details

Region	1
Region Length	5.6Kb
Completeness(score)	incomplete(10)
Specific Keyword	NA
Region Position	6015-11700
# tRNA	1
# Total Proteins	7
# Phage Hit Proteins	6
# Hypothetical Proteins	1
Phage + Hypothetical Protein %	100%
# Bacterial Proteins	0
Attachment Site	no
# Phage Species	5
Most Common Phage Name(hit genes count)	PHAGE_Dinoro_vB_DshS_R5C_NC_041921(2) PHAGE_Strept_Dp_1_NC_015274(2) PHAGE_Entero_JenP2_NC_028997(1) PHAGE_Bacill_Finn_NC_020480(1) PHAGE_Cellul_phiSM_NC_020860(1) PHAGE_Synech_S_SSM7_NC_015287(1) PHAGE_Bacill_BCD7_NC_019515(1) PHAGE_Deep_s_D6E_NC_019544(1) PHAGE_Gordon_Sour_NC_042132(1) PHAGE_Salmon_(in:Nonagvirus)_NC_042025(1) PHAGE_Entero_JenP1_NC_029028(1) PHAGE_Synech_S_CAM4_NC_031900(1) PHAGE_Halovi_HCTV_5_NC_021327(1) PHAGE_Entero_JenK1_NC_029021(1) PHAGE_Bacill_Riggi_NC_022765(1) PHAGE_Prochl_P_TIM68_NC_028955(1) PHAGE_Bacill_SPbeta_NC_001884(1) PHAGE_Mycoba_Adler_NC_023591(1) PHAGE_Mycoba_Rosebush_NC_004684(1) PHAGE_Paenib_Tripp_NC_028930(1) PHAGE_Vibrio_X29_NC_024369(1) PHAGE_Halovi_HVTV_1_NC_020158(1) PHAGE_Staphy_StauST398_5_NC_023500(1) PHAGE_Mycoba_Godines_NC_042050(1)
First Most Common Phage #	2
First Most Common Phage %	28.57%
GC %	42.40%

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.
Specific Keyword:	The specific phage-related keyword(s) found in protein name(s) in the region.
Region Position:	The start and end positions of the region on the bacterial chromosome.
# tRNA:	The number of tRNA genes present in the region.
# Total Proteins:	The number of ORFs present in the region.
# Phage Hit Proteins:	The number of proteins in the region with matches in the phage protein database.
# Hypothetical Proteins:	The number of hypothetical proteins in the region without a match in the database.
Phage + Hypothetical Protein %:	The combined percentage of phage proteins and hypothetical proteins in the region.
# Bacterial Proteins:	The number of proteins in the region with matches in the nrfilt database.
Attachment Site:	The putative phage attachment site.
# Phage Species:	The number of different phages that have similar proteins to those in the region.
Most Common Phage:	The phage(s) with the highest number of proteins most similar to those in the region.
First Most Common Phage #:	The highest number of proteins in a phage most similar to those in the region.
First Most Common Phage %:	The percentage of proteins in # Phage Hit Proteins that are most similar to the Most Common Phage proteins.
GC %:	The percentage of GC nucleotides of the region.

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:

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:

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:

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.
If the size of the region is greater than 30 Kb, the score will be increased by 10.
If there are at least 40 proteins in the region, the score will be increased by 10.
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|PFHB01000066.1| Candidatus Omnitrophica bacterium CG_4_8_14_3_um_filter_43_15 18115, gc%: 41.67%

Download details as .txt file: detail.txt

Hits against Virus and Prophage Database

Hits against Bacterial Database or GenBank File

Region 1, total 8 CDS

#	CDS Position	BLAST Hit	E-Value	Sequence
1	6015..6506	PHAGE_Bacill_SPbeta_NC_001884: putative DNase/RNase endonuclease; COZ98_05100; phage(gi9630131)	1.15e-27	Show
2	6592..6676	tRNA	0.0	Show
3	6716..7168	PHAGE_Staphy_StauST398_5_NC_023500: SsrA-binding protein; COZ98_05110; phage(gi588498309)	1.88e-36	Show
4	7703..8821	PHAGE_Paenib_Tripp_NC_028930: N-acetylmuramoyl-L-alanine amidase; COZ98_05120; phage(gi971756979)	1.16e-29	Show
5	8821..9994	hypothetical protein; COZ98_05125	0.0	Show
6	9987..10634	PHAGE_Strept_Dp_1_NC_015274: QueC; COZ98_05130; phage(gi327198316)	1.05e-34	Show
7	10628..11311	PHAGE_Entero_JenK1_NC_029021: queuosine Biosynthesis QueE Radical SAM; COZ98_05135; phage(gi971766409)	4.23e-14	Show
8	11308..11700	PHAGE_Strept_Dp_1_NC_015274: QueF; COZ98_05140; phage(gi327198315)	4.02e-28	Show

Click on a region to see details.

Intact (score > 90)

Questionable (score 70-90)

Incomplete (score < 70)

Viewer Options

Length: 18115 bps

Phages: 1

Click on a region in the genome above to show details here.

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