Submission Results

Sequence Name: Not Available

GenBank Accession Number: VJML01000006.1

GenInfo (GI) Number: 0000000000

Download Results: VJML01000006.1.PHASTER.zip

gi|00000000|ref|VJML01000006.1| Staphylococcus hominis strain SDA3 159182, gc%: 32.08%

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
144Kbincomplete305790556-134562 info_outlinePHAGE_Staphy_vB_SpsS_QT1_NC_048192(19)33.47%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|VJML01000006.1| Staphylococcus hominis strain SDA3 159182, gc%: 32.08%

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 59 CDS

#CDS PositionBLAST HitE-ValueSequence
190556..90567attL0.0Showinfo_outline
2complement(90930..92339)PHAGE_Staphy_CNPx_NC_031241: hypothetical protein; FNL05_06890; phage(gi100031)1.08e-129Showinfo_outline
3complement(92390..92941)PHAGE_Propio_PFR1_NC_031076: hypothetical protein; FNL05_06895; phage(gi100027)4.81e-31Showinfo_outline
4complement(93043..93504)PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_06900; phage(gi100029)1.19e-50Showinfo_outline
5complement(93517..93852)PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_06905; phage(gi100030)7.76e-15Showinfo_outline
694037..94294PHAGE_Lactob_Lb_NC_047983: exonuclease; FNL05_06910; phage(gi100048)7.39e-14Showinfo_outline
794449..95231PHAGE_Staphy_SA7_NC_048658: methyltransferase type 11; FNL05_06915; phage(gi100001)3.98e-108Showinfo_outline
8complement(95385..95615)PHAGE_Staphy_29_NC_007061: ORF058; FNL05_06920; phage(gi66396241)9.46e-46Showinfo_outline
995755..95940PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_06925; phage(gi939535489)1.33e-15Showinfo_outline
1096023..96259PHAGE_Staphy_P630_NC_048635: DNA adenine methyltransferase; FNL05_06930; phage(gi100041)2.47e-20Showinfo_outline
1196252..96737PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_06935; phage(gi939535491)2.61e-109Showinfo_outline
1296738..97526PHAGE_Staphy_P1105_NC_048636: putative transcriptional regulator; FNL05_06940; phage(gi100045)0.0Showinfo_outline
1397555..98079PHAGE_Staphy_80_NC_030652: hypothetical protein; FNL05_06945; phage(gi100014)5.20e-10Showinfo_outline
1498094..98789PHAGE_Staphy_phiMR11_NC_010147: hypothetical protein; FNL05_06950; phage(gi162290123)6.33e-138Showinfo_outline
1598764..99003PHAGE_Paenib_Likha_NC_048693: u-spanin; FNL05_06955; phage(gi100032)2.55e-07Showinfo_outline
1699000..99764PHAGE_Staphy_77_NC_005356: 77ORF016; FNL05_06960; phage(gi41189531)1.77e-118Showinfo_outline
1799777..100583PHAGE_Staphy_80_NC_030652: hypothetical protein; FNL05_06965; phage(gi100018)1.12e-59Showinfo_outline
18100734..100976PHAGE_Staphy_IME_SA4_NC_029025: hypothetical protein; FNL05_06970; phage(gi971766729)5.34e-43Showinfo_outline
19100987..101415PHAGE_Staphy_80_NC_030652: hypothetical protein; FNL05_06975; phage(gi100021)3.08e-86Showinfo_outline
20101412..101738PHAGE_Lactob_PLE2_NC_031036: putative transcriptional regulator; FNL05_06980; phage(gi100045)1.03e-19Showinfo_outline
21101725..102108PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_06985; phage(gi939535502)1.16e-45Showinfo_outline
22102108..102290PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_06990; phage(gi939535503)8.12e-36Showinfo_outline
23102295..102507PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_06995; phage(gi939535504)2.84e-38Showinfo_outline
24102699..102971PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_07000; phage(gi939535505)6.70e-59Showinfo_outline
25102968..103432PHAGE_Staphy_vB_SpsS_QT1_NC_048192: recombination protein; FNL05_07005; phage(gi100049)3.32e-89Showinfo_outline
26103435..104115PHAGE_Staphy_CNPx_NC_031241: hypothetical protein; FNL05_07010; phage(gi100058)2.38e-138Showinfo_outline
27104112..104309PHAGE_Staphy_CNPx_NC_031241: hypothetical protein; FNL05_07015; phage(gi100059)2.36e-33Showinfo_outline
28104401..104583PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_07020; phage(gi939535511)1.56e-17Showinfo_outline
29104723..105037PHAGE_Staphy_Ipla7_NC_018284: DNA binding protein; FNL05_07025; phage(gi399529174)1.08e-61Showinfo_outline
30105126..105437PHAGE_Staphy_PH15_NC_008723: hypothetical protein; FNL05_07030; phage(gi119967895)2.13e-59Showinfo_outline
31105653..105934PHAGE_Staphy_StB12_NC_020490: hypothetical protein; FNL05_07035; phage(gi939535514)3.73e-17Showinfo_outline
32105927..106109PHAGE_Staphy_StB27_NC_019914: RinB; FNL05_07040; phage(gi431809700)1.96e-15Showinfo_outline
33106109..106531hypothetical protein; FNL05_070450.0Showinfo_outline
34106536..106760hypothetical protein; FNL05_070500.0Showinfo_outline
35106764..106952PHAGE_Staphy_SA780ruMSSAST101_NC_048711: holin; FNL05_07055; phage(gi100034)1.95e-05Showinfo_outline
36106966..107364PHAGE_Staphy_AJ_2017_NC_048644: u-spanin; FNL05_07060; phage(gi100032)9.47e-39Showinfo_outline
37107502..107828PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07065; phage(gi100060)3.23e-48Showinfo_outline
38107998..108357PHAGE_Staphy_vB_SpsS_QT1_NC_048192: methyltransferase type 11; FNL05_07070; phage(gi100001)1.17e-39Showinfo_outline
39108354..110015PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07075; phage(gi100002)0.0Showinfo_outline
40110035..111180PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07080; phage(gi100003)1.97e-165Showinfo_outline
41111173..112036PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07085; phage(gi100004)5.54e-88Showinfo_outline
42112098..113276PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07090; phage(gi100005)0.0Showinfo_outline
43113294..113590PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07095; phage(gi100006)2.05e-28Showinfo_outline
44113580..113951PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07100; phage(gi100007)1.21e-68Showinfo_outline
45113941..114363PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07105; phage(gi100008)1.36e-54Showinfo_outline
46114360..114767PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07110; phage(gi100009)2.41e-55Showinfo_outline
47114768..115382PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07115; phage(gi100010)6.11e-117Showinfo_outline
48115627..115989PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07120; phage(gi100012)2.57e-63Showinfo_outline
49116254..122505PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07125; phage(gi100014)0.0Showinfo_outline
50122506..123990PHAGE_Staphy_P282_NC_048634: hypothetical protein; FNL05_07130; phage(gi100016)0.0Showinfo_outline
51124006..128730PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07135; phage(gi100016)0.0Showinfo_outline
52128907..129203PHAGE_Staphy_SA7_NC_048658: hypothetical protein; FNL05_07140; phage(gi100051)1.63e-08Showinfo_outline
53129215..129634PHAGE_Staphy_IME_SA4_NC_029025: hypothetical protein; FNL05_07145; phage(gi971766705)2.57e-93Showinfo_outline
54129603..130016PHAGE_Staphy_IME_SA4_NC_029025: hypothetical protein; FNL05_07150; phage(gi971766706)1.52e-90Showinfo_outline
55130073..130324PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07155; phage(gi100020)7.01e-24Showinfo_outline
56130335..130943PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07160; phage(gi100021)9.47e-101Showinfo_outline
57131007..131561PHAGE_Staphy_StB20_NC_019915: homing HNH endonuclease; FNL05_07165; phage(gi431809794)7.55e-72Showinfo_outline
58131907..132743PHAGE_Staphy_vB_SpsS_QT1_NC_048192: hypothetical protein; FNL05_07170; phage(gi100021)1.06e-115Showinfo_outline
59134562..134573attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 159182 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