Submission Results

Sequence Name: Not Available

GenBank Accession Number: PRLM01000003.1

GenInfo (GI) Number: 0000000000

Download Results: PRLM01000003.1.PHASTER.zip

gi|00000000|ref|PRLM01000003.1| Candidatus Saccharibacteria bacterium TM7_G3_2_Rum_HOT_351B 117809, gc%: 43.10%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
125.7Kbincomplete401759558-85260 info_outlinePHAGE_Bacill_JL_NC_028982(2)42.84%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|PRLM01000003.1| Candidatus Saccharibacteria bacterium TM7_G3_2_Rum_HOT_351B 117809, gc%: 43.10%

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
159558..59569attL0.0Showinfo_outline
259763..60329PHAGE_Bacill_phIS3501_NC_019502: site-specific phage integrase; G3RUM_00370; phage(gi422934319)8.28e-37Showinfo_outline
3complement(60347..62728)hypothetical protein; G3RUM_003710.0Showinfo_outline
462883..62896attL0.0Showinfo_outline
563041..63637hypothetical protein; G3RUM_003720.0Showinfo_outline
663834..64286hypothetical protein; G3RUM_003730.0Showinfo_outline
764400..64693hypothetical protein; G3RUM_003740.0Showinfo_outline
864693..64992hypothetical protein; G3RUM_003750.0Showinfo_outline
965137..65784PHAGE_Phormi_MIS_PhV1A_NC_029032: hypothetical protein; G3RUM_00376; phage(gi100007)2.24e-21Showinfo_outline
1065788..66009hypothetical protein; G3RUM_003770.0Showinfo_outline
1165999..68140PHAGE_Deep_s_D6E_NC_019544: lipid A export ATP-binding/permease protein MsbA; G3RUM_00378; phage(gi423262350)1.27e-11Showinfo_outline
1268142..69161PHAGE_Bacill_G_NC_023719: gp146; G3RUM_00379; phage(gi593777605)1.43e-06Showinfo_outline
13complement(69289..69687)PHAGE_Tsukam_TPA4_NC_030916: DNA topoisomerase medium subunit; G3RUM_00380; phage(gi100004)1.25e-05Showinfo_outline
1469782..70009hypothetical protein; G3RUM_003810.0Showinfo_outline
1570053..70232PHAGE_Halovi_HCTV_1_NC_021330: hypothetical protein; G3RUM_00382; phage(gi509140689)7.65e-05Showinfo_outline
1670235..70909hypothetical protein; G3RUM_003830.0Showinfo_outline
1771190..71483hypothetical protein; G3RUM_003840.0Showinfo_outline
1871539..72882PHAGE_Bacill_Gamma_NC_007458: site-specific recombinase; G3RUM_00385; phage(gi77020163)2.10e-31Showinfo_outline
1972851..74134PHAGE_Bacill_phBC6A51_NC_004820: Site-specific recombinase; G3RUM_00386; phage(gi31415812)6.16e-33Showinfo_outline
2074536..74549attR0.0Showinfo_outline
2185260..85271attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 117809 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