Submission Results

Sequence Name: Not Available

GenBank Accession Number: MIJQ01000031.1

Download Results: MIJQ01000031.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Brucella melitensis strain Br.m-1268/11-Geo MjBr9.8, whole genome 182742, gc%: 57.05%

Download summary as .txt file:summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
115.2Kbintact1301953566-68827 info_outlinePHAGE_Dinoro_vB_DshS_R5C_NC_041921(5)60.70%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|MIJQ01000031.1| Brucella melitensis strain Br.m-1268/11-Geo MjBr9.8, whole genome 182742, gc%: 57.05%

Download details as .txt file:detail.txt file_download

Terminase
Portal protein
Head protein
Phage-like protein
Tail protein
Regulatory protein

intact

Region 1, total 15 CDS

#CDS PositionBLAST HitE-ValueSequence
153566..54825PP_00055;terminase large subunit;phage;PHAGE_Caulob_Sansa_NC_0477567.96e-85Show info_outline
254857..56050PP_00056;portal protein;phage;PHAGE_Geobac_GBK2_NC_0236121.92e-65Show info_outline
356411..57080PP_00058;putative prohead protease;phage;PHAGE_Paraco_Shpa_NC_0418688.44e-14Show info_outline
457102..58376PP_00059;phage major capsid protein;phage;PHAGE_Entero_SfI_NC_0273397.73e-100Show info_outline
558541..59107PP_00060;DNA packaging/head-tail-connector;phage;PHAGE_Brucel_BiPBO1_NC_0312642.28e-13Show info_outline
659104..59442PP_00061;head-tail connector complex protein;phage;PHAGE_Paenib_Yerffej_NC_0487143.44e-17Show info_outline
759564..59971PP_00062;DUF3168 domain-containing protein;phage;PHAGE_Paenib_Tadhana_NC_0486916.15e-08Show info_outline
860012..60425PP_00063;gene transfer aget (GTA) orfg9-like phage major tail protein;phage;PHAGE_Rhodob_RcapNL_NC_0204893.79e-23Show info_outline
960982..61527PP_00065;putative tail tape measure protein;phage;PHAGE_Vibrio_SSP002_NC_0419101.97e-12Show info_outline
1061530..62162PP_00066;tail protein;phage;PHAGE_Rhodob_RcRhea_NC_0289543.68e-57Show info_outline
1162159..63034PP_00067;minor tail protein;phage;PHAGE_Rhodob_RcCronus_NC_0420497.65e-55Show info_outline
1263031..63465PP_00068;GTA-like protein;phage;PHAGE_Dinoro_vB_DshS_R5C_NC_0419212.13e-35Show info_outline
1363469..64656PP_00069;tail protein;phage;PHAGE_Rhodob_RcRhea_NC_0289547.89e-57Show info_outline
1464727..67330PP_00070;tail protein;phage;PHAGE_Rhodob_RcRhea_NC_0289541.6e-120Show info_outline
1568138..68827PP_00073;hybrid sensor histidine kinase - response regulator;phage;PHAGE_Altero_vB_AmeM_PT11_V22_NC_0488478.39e-06Show info_outline

gi|00000000|ref|MIJQ01000031.1| Brucella melitensis strain Br.m-1268/11-Geo MjBr9.8, whole genome 182742, gc%: 57.05%

Download details as .txt file:detail.txt file_download

Non phage-like protein
Hypothetical protein
tRNA

Bacterial, total 163 CDS

#CDS PositionBLAST HitE-ValueSequence
11..223PP_00001; IS5 family transposase0.0Showinfo_outline
2354..1472PP_00002; glycosyl transferase family 10.0Showinfo_outline
31530..1898PP_00003; IS5 family transposase0.0Showinfo_outline
41994..2335PP_00004; IS5 family transposase0.0Showinfo_outline
52425..2979PP_00005; transposase0.0Showinfo_outline
63143..3571PP_00006; IS5 family transposase0.0Showinfo_outline
73490..3906PP_00007; IS5 family transposase0.0Showinfo_outline
84731..6086PP_00008; phosphomannomutase0.0Showinfo_outline
96157..7581PP_00009; mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase0.0Showinfo_outline
107614..8786PP_00010; mannose-6-phosphate isomerase0.0Showinfo_outline
118869..9978PP_00011; glycosyl transferase family 10.0Showinfo_outline
1210670..12203PP_00012; lactate permease0.0Showinfo_outline
1312224..13225PP_00013; ABC transporter permease0.0Showinfo_outline
1413304..14266PP_00014; ABC transporter substrate-binding protein0.0Showinfo_outline
1514324..15376PP_00015; AP endonuclease0.0Showinfo_outline
1615384..16556PP_00016; oxidoreductase0.0Showinfo_outline
1716598..17905PP_00017; xylose isomerase0.0Showinfo_outline
1817952..19403PP_00018; xylulokinase0.0Showinfo_outline
1919436..20467PP_00019; LacI family transcriptional regulator0.0Showinfo_outline
2020729..21247PP_00020; AraC family transcriptional regulator0.0Showinfo_outline
2121382..21582PP_00021; hypothetical protein0.0Showinfo_outline
2222262..23725PP_00022; betaine-aldehyde dehydrogenase0.0Showinfo_outline
2323877..25559PP_00023; choline dehydrogenase0.0Showinfo_outline
2425562..26158PP_00024; transcriptional regulator BetI0.0Showinfo_outline
2526349..27371PP_00025; asparaginase0.0Showinfo_outline
2627416..27886PP_00026; transcription elongation factor0.0Showinfo_outline
2727883..28272PP_00027; death-on-curing family protein0.0Showinfo_outline
2828269..28499PP_00028; AbrB family transcriptional regulator0.0Showinfo_outline
2928560..29552PP_00029; magnesium transporter CorA0.0Showinfo_outline
3029708..30385PP_00030; GntR family transcriptional regulator0.0Showinfo_outline
3130382..31680PP_00031; MFS transporter0.0Showinfo_outline
3231737..32099PP_00032; hypothetical protein0.0Showinfo_outline
3332435..33946PP_00033; ATP-binding protein0.0Showinfo_outline
3434144..34860PP_00034; hypothetical protein0.0Showinfo_outline
3534919..35161PP_00035; hypothetical protein0.0Showinfo_outline
3635057..35815PP_00036; haloacid dehalogenase, type II0.0Showinfo_outline
3736038..36637PP_00037; superoxide dismutase0.0Showinfo_outline
3836809..37144PP_00038; metallophosphoesterase0.0Showinfo_outline
3937262..39370PP_00039; peptidase S90.0Showinfo_outline
4039943..40371PP_00040; transcriptional regulator0.0Showinfo_outline
4140579..40890PP_00041; cytoplasmic protein0.0Showinfo_outline
4241072..41527PP_00042; hypothetical protein0.0Showinfo_outline
4341524..42297PP_00043; hypothetical protein0.0Showinfo_outline
4442410..43747PP_00044; amidase0.0Showinfo_outline
4543788..44213PP_00045; cysteine desufuration protein SufE0.0Showinfo_outline
4644293..44757PP_00046; hypothetical protein0.0Showinfo_outline
4745048..46877PP_00047; PAS domain-containing sensor histidine kinase0.0Showinfo_outline
4846852..47820PP_00048; peptidoglycan-binding protein0.0Showinfo_outline
4947834..48181PP_00049; hypothetical protein0.0Showinfo_outline
5048192..49250PP_00050; DUF2336 domain-containing protein0.0Showinfo_outline
5149448..49990PP_00051; hypothetical protein0.0Showinfo_outline
5249983..50594PP_00052; DUF1214 domain-containing protein0.0Showinfo_outline
5350601..52775PP_00053; penicillin-binding protein0.0Showinfo_outline
5453115..53627PP_00054; hypothetical protein0.0Showinfo_outline
5568902..70212PP_00074; histidine kinase0.0Showinfo_outline
5670306..70758PP_00075; hypothetical protein0.0Showinfo_outline
5770859..71998PP_00076; c-type cytochrome biogenesis protein CcmI0.0Showinfo_outline
5871995..72492PP_00077; cytochrome c biogenesis protein CcmE0.0Showinfo_outline
5972512..74503PP_00078; c-type cytochrome biogenesis protein CcmF0.0Showinfo_outline
6074500..74976PP_00079; cytochrome C0.0Showinfo_outline
6175118..76659PP_00080; serine peptidase0.0Showinfo_outline
6276753..77460PP_00081; DNA-binding response regulator0.0Showinfo_outline
6377460..78863PP_00082; two-component sensor histidine kinase0.0Showinfo_outline
6478986..81937PP_00083; glutamine-synthetase adenylyltransferase0.0Showinfo_outline
6581982..84093PP_00084; hypothetical protein0.0Showinfo_outline
6684364..86715PP_00085; PAS domain-containing sensor histidine kinase0.0Showinfo_outline
6787106..89757PP_00086; aminopeptidase N0.0Showinfo_outline
6889983..90942PP_00087; hypothetical protein0.0Showinfo_outline
6990947..92203PP_00088; MFS transporter0.0Showinfo_outline
7092365..93237PP_00089; uracil-DNA glycosylase0.0Showinfo_outline
7193626..95317PP_00090; electron transfer flavoprotein-ubiquinone oxidoreductase0.0Showinfo_outline
7295433..96509PP_00091; AP endonuclease0.0Showinfo_outline
7396562..98064PP_00092; AMP nucleosidase0.0Showinfo_outline
7498105..98272PP_00093; hypothetical protein0.0Showinfo_outline
7598269..98436PP_00094; hypothetical protein0.0Showinfo_outline
7698631..99341PP_00095; glutathione S-transferase0.0Showinfo_outline
7799400..99747PP_00096; glycerol-3-phosphate ABC transporter ATP-binding protein0.0Showinfo_outline
7899744..99983PP_00097; hypothetical protein0.0Showinfo_outline
79100253..100510PP_00098; hypothetical protein0.0Showinfo_outline
80100570..101340PP_00099; hypothetical protein0.0Showinfo_outline
81101995..102645PP_00100; antifreeze protein0.0Showinfo_outline
82102690..103064PP_00101; oxidoreductase0.0Showinfo_outline
83103082..104215PP_00102; histidinol-phosphate aminotransferase0.0Showinfo_outline
84104578..105504PP_00103; integrase0.0Showinfo_outline
85105779..106882PP_00104; porin0.0Showinfo_outline
86107063..107153tRNA-Ser0.0Showinfo_outline
87107722..108810PP_00105; porin0.0Showinfo_outline
88108954..109595PP_00106; hypothetical protein0.0Showinfo_outline
89109651..109833PP_00107; hypothetical protein0.0Showinfo_outline
90109912..110568PP_00108; endonuclease0.0Showinfo_outline
91110631..112688PP_00109; lytic transglycosylase0.0Showinfo_outline
92113164..114045PP_00110; 4-hydroxy-tetrahydrodipicolinate synthase0.0Showinfo_outline
93114136..114612PP_00111; SsrA-binding protein0.0Showinfo_outline
94114749..115420PP_00112; uracil-DNA glycosylase0.0Showinfo_outline
95115451..116026PP_00113; NYN domain-containing protein0.0Showinfo_outline
96116423..116824PP_00114; DNA-directed RNA polymerase subunit omega0.0Showinfo_outline
97117065..119317PP_00115; GTP pyrophosphokinase0.0Showinfo_outline
98119325..119903PP_00116; orotate phosphoribosyltransferase0.0Showinfo_outline
99120063..120818PP_00117; Crp/Fnr family transcriptional regulator0.0Showinfo_outline
100121199..122533PP_00118; oxygen-independent coproporphyrinogen III oxidase0.0Showinfo_outline
101122717..123928PP_00119; Fosmidomycin resistance protein0.0Showinfo_outline
102124180..125019PP_00120; AraC family transcriptional regulator0.0Showinfo_outline
103125069..125644PP_00121; hypothetical protein0.0Showinfo_outline
104125641..126045PP_00122; holo-ACP synthase0.0Showinfo_outline
105126156..126938PP_00123; signal peptidase I0.0Showinfo_outline
106126940..127644PP_00124; ribonuclease III0.0Showinfo_outline
107127789..128724PP_00125; GTPase Era0.0Showinfo_outline
108128751..129494PP_00126; DNA repair protein RecO0.0Showinfo_outline
109129472..129981PP_00127; tyrosine protein phosphatase0.0Showinfo_outline
110129978..130598PP_00128; hydrolase0.0Showinfo_outline
111130598..131461PP_00129; aminomethyltransferase0.0Showinfo_outline
112131547..132881PP_00130; dihydroorotase0.0Showinfo_outline
113132930..133694PP_00131; hypothetical protein0.0Showinfo_outline
114133743..134009PP_00132; hypothetical protein0.0Showinfo_outline
115134166..134549PP_00133; TIGR02301 family protein0.0Showinfo_outline
116134629..135072PP_00134; DNA mismatch repair protein MutT0.0Showinfo_outline
117135158..135937PP_00135; hypothetical protein0.0Showinfo_outline
118135992..136606PP_00136; amino acid transporter0.0Showinfo_outline
119136583..136750PP_00137; hydrolase0.0Showinfo_outline
120137117..138637PP_00138; cysteine--tRNA ligase0.0Showinfo_outline
121138656..140269PP_00139; citramalate synthase0.0Showinfo_outline
122140520..141440PP_00140; permease0.0Showinfo_outline
123141573..143306PP_00141; peptidase M240.0Showinfo_outline
124143374..144204PP_00142; 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase0.0Showinfo_outline
125144201..145232PP_00143; 4-hydroxythreonine-4-phosphate dehydrogenase PdxA0.0Showinfo_outline
126145297..146253PP_00144; molecular chaperone SurA0.0Showinfo_outline
127146581..148959PP_00145; Organic solvent tolerance protein0.0Showinfo_outline
128148980..150068PP_00146; LPS export ABC transporter permease LptG0.0Showinfo_outline
129150065..151273PP_00147; LPS export ABC transporter permease LptF0.0Showinfo_outline
130151683..153176PP_00148; leucyl aminopeptidase0.0Showinfo_outline
131153248..153697PP_00149; DNA polymerase III subunit chi0.0Showinfo_outline
132153697..154260PP_00150; hypothetical protein0.0Showinfo_outline
133154320..156221PP_00151; glycosyl transferase family 10.0Showinfo_outline
134156264..156776PP_00152; diguanylate cyclase0.0Showinfo_outline
135157005..157427PP_00153; nucleoside-diphosphate kinase0.0Showinfo_outline
136157536..158339PP_00154; hypothetical protein0.0Showinfo_outline
137158576..159067PP_00155; molybdopterin synthase catalytic subunit0.0Showinfo_outline
138159069..159326PP_00156; molybdopterin converting factor subunit 10.0Showinfo_outline
139159331..159915PP_00157; CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase0.0Showinfo_outline
140160034..162091PP_00158; excinuclease ABC subunit C0.0Showinfo_outline
141162091..162909PP_00159; short chain dehydrogenase0.0Showinfo_outline
142163248..163889PP_00160; hypothetical protein0.0Showinfo_outline
143163986..164585PP_00161; glutathione S-transferase0.0Showinfo_outline
144164640..165329PP_00162; ribonuclease T0.0Showinfo_outline
145165342..165812PP_00163; hypothetical protein0.0Showinfo_outline
146165895..166767PP_00164; 23S rRNA (adenine(2030)-N(6))-methyltransferase RlmJ0.0Showinfo_outline
147166923..167768PP_00165; hypothetical protein0.0Showinfo_outline
148167846..169972PP_00166; dehydrogenase0.0Showinfo_outline
149170098..170622PP_00167; hypothetical protein0.0Showinfo_outline
150170798..171415PP_00168; phosphoribosylglycinamide formyltransferase0.0Showinfo_outline
151171412..172491PP_00169; phosphoribosylformylglycinamidine cyclo-ligase0.0Showinfo_outline
152172981..174129PP_00170; AI-2E family transporter0.0Showinfo_outline
153174157..174864PP_00171; hypothetical protein0.0Showinfo_outline
154174861..175730PP_00172; UDP-glucose 4-epimerase0.0Showinfo_outline
155175727..176512PP_00173; hypothetical protein0.0Showinfo_outline
156176585..177289PP_00174; 3-oxoacyl-ACP reductase0.0Showinfo_outline
157177451..177606PP_00175; hypothetical protein0.0Showinfo_outline
158177988..179672PP_00176; lactate permease0.0Showinfo_outline
159179971..180047tRNA-Pro0.0Showinfo_outline
160180206..180511PP_00177; ETC complex I subunit0.0Showinfo_outline
161180609..180685tRNA-Arg0.0Showinfo_outline
162181077..181667PP_00178; hypothetical protein0.0Showinfo_outline
163181888..182499PP_00179; exonuclease0.0Showinfo_outline

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Click on a region or gene to view details

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