Submission Results

Sequence Name: Not Available

GenBank Accession Number: LNVF01000007.1

Download Results: LNVF01000007.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Streptococcus oralis subsp. tigurinus strain AZ_8 84145, gc%: 41.89%

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
131.1Kbintact1103852984-84145 info_outlinePHAGE_Clostr_vB_CpeS_CP51_NC_021325(10)40.66%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|LNVF01000007.1| Streptococcus oralis subsp. tigurinus strain AZ_8 84145, gc%: 41.89%

Download details as .txt file:detail.txt file_download

Kinase
DNA Helicase
Phage-like protein
Holin
Hypothetical protein
Head protein
Portal protein
Terminase
Replication protein

intact

Region 1, total 31 CDS

#CDS PositionBLAST HitE-ValueSequence
152984..53952PP_00050;ribose-phosphate pyrophosphokinase;phage;PHAGE_Klebsi_KNP2_NC_0486473.78e-21Show info_outline
254733..55926PP_00052;DNA helicase;phage;PHAGE_Arthro_vB_ArS_ArV2_NC_0229721.32e-05Show info_outline
356625..57068PP_00054;putative dUTPase;phage;PHAGE_Clostr_c_st_NC_0075811.67e-38Show info_outline
457355..58320PP_00055;N-acetylmuramoyl-L-alanine amidase;phage;PHAGE_Strept_SpSL1_NC_0273961.39e-154Show info_outline
558323..58655PP_00056;phage holin;phage;PHAGE_Strept_K13_NC_0243571.37e-59Show info_outline
658658..58957PP_00057;phage protein;phage;PHAGE_Strept_K13_NC_0243572.73e-65Show info_outline
758969..59574PP_00058;phage protein;phage;PHAGE_Strept_20617_NC_0235036.9e-35Show info_outline
859584..61626PP_00059;minor structural protein;phage;PHAGE_Strept_Dp_1_NC_0152740.0Show info_outline
961637..64384PP_00060;antireceptor;phage;PHAGE_Strept_Dp_1_NC_0152741.14e-156Show info_outline
1064393..64734PP_00061;hypothetical protein;phage;PHAGE_Lactoc_PLgT_1_NC_0310161.33e-08Show info_outline
1164744..67920PP_00062;hypothetical protein;phage;PHAGE_Strept_phiARI0004_NC_0319205.38e-89Show info_outline
1267934..68167PP_00063;hypothetical protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213251.91e-15Show info_outline
1368803..69246PP_00066;minor capsid protein;phage;PHAGE_Lactob_phig1e_NC_0043058.9e-08Show info_outline
1469246..69656PP_00067;hypothetical protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213252.79e-31Show info_outline
1569659..70039PP_00068;minor capsid protein;phage;PHAGE_Bacill_Deep_Purple_NC_0486672.62e-07Show info_outline
1670044..70382PP_00069;hypothetical protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213252.49e-06Show info_outline
1770382..70756PP_00070;putative head-tail connector protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213255.13e-18Show info_outline
1870996..71895PP_00072;main capsid protein;phage;PHAGE_Bacill_IEBH_NC_0111675.88e-86Show info_outline
1972714..72965PP_00074;Phage protein;phage;PHAGE_Strept_IC1_NC_0243701.02e-53Show info_outline
2072968..73231PP_00075;hypothetical protein;phage;PHAGE_Strept_phiARI0746_NC_0319079.26e-51Show info_outline
2173545..75314PP_00077;putative phage minor capsid protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213256.69e-86Show info_outline
2275446..77008PP_00078;putative phage portal protein;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213254.98e-152Show info_outline
2377019..78359PP_00079;putative phage terminase large subunit;phage;PHAGE_Clostr_vB_CpeS_CP51_NC_0213250.0Show info_outline
2478343..78840PP_00080;phage terminase, small subunit;phage;PHAGE_Strept_K13_NC_0243571.1e-82Show info_outline
2579180..79539PP_00081;DUF1492 domain protein;phage;PHAGE_Strept_phiARI0468_1_NC_0319292.89e-70Show info_outline
2679669..79935PP_00082;hypothetical protein;phage;PHAGE_Strept_MM1_NC_0030501.21e-32Show info_outline
2779932..80339PP_00083;YopX superfamily protein;phage;PHAGE_Entero_phiFL2A_NC_0136434.65e-16Show info_outline
2880362..81036PP_00084;N-6 adenine-specific DNA methylase;phage;PHAGE_Strept_SpSL1_NC_0273962.32e-156Show info_outline
2981568..82968PP_00085;hypothetical protein;phage;PHAGE_Strept_SMP_NC_0087210.0Show info_outline
3082959..83780PP_00086;replication protein;phage;PHAGE_Strept_SMP_NC_0087213.53e-175Show info_outline
3183792..84145PP_00087;single-strand binding protein;phage;PHAGE_Strept_SMP_NC_0087211.21e-66Show info_outline

gi|00000000|ref|LNVF01000007.1| Streptococcus oralis subsp. tigurinus strain AZ_8 84145, gc%: 41.89%

Download details as .txt file:detail.txt file_download

Hypothetical protein
Non phage-like protein

Bacterial, total 49 CDS

#CDS PositionBLAST HitE-ValueSequence
11..1221PP_00001; hypothetical protein0.0Showinfo_outline
21221..2225PP_00002; cell filamentation protein Fic0.0Showinfo_outline
32215..3771PP_00003; restriction endonuclease0.0Showinfo_outline
44306..4545PP_00004; hypothetical protein0.0Showinfo_outline
54667..5902PP_00005; hypothetical protein0.0Showinfo_outline
66187..6750PP_00006; acetyltransferase0.0Showinfo_outline
76927..7232PP_00007; sulfurtransferase0.0Showinfo_outline
87253..8908PP_00008; CoA-disulfide reductase0.0Showinfo_outline
98898..9194PP_00009; rhodanese0.0Showinfo_outline
109508..9765PP_00010; hypothetical protein0.0Showinfo_outline
119914..10534PP_00011; GTP pyrophosphokinase0.0Showinfo_outline
1210544..11218PP_00012; two-component system response regulator0.0Showinfo_outline
1311219..12451PP_00013; histidine kinase0.0Showinfo_outline
1412564..13418PP_00014; glyoxalase0.0Showinfo_outline
1513480..13659PP_00015; hypothetical protein0.0Showinfo_outline
1614175..15212PP_00016; galactose mutarotase0.0Showinfo_outline
1715359..16354PP_00017; tagatose-bisphosphate aldolase0.0Showinfo_outline
1816365..17531PP_00018; tagatose-6-phosphate ketose isomerase0.0Showinfo_outline
1917636..17974PP_00019; PTS fructose transporter subunit IIA0.0Showinfo_outline
2018044..18865PP_00020; PTS fructose transporter subunit IID0.0Showinfo_outline
2118852..19757PP_00021; PTS fructose transporter subunit IIC0.0Showinfo_outline
2219784..20260PP_00022; PTS mannose transporter subunit IIAB0.0Showinfo_outline
2320257..22044PP_00023; beta-galactosidase0.0Showinfo_outline
2422367..23083PP_00024; GntR family transcriptional regulator0.0Showinfo_outline
2523386..27387PP_00025; beta-N-acetylhexosaminidase0.0Showinfo_outline
2627445..28743PP_00026; adenylosuccinate lyase0.0Showinfo_outline
2728839..30206PP_00027; hypothetical protein0.0Showinfo_outline
2830276..31355PP_00028; phosphoribosylaminoimidazole carboxylase0.0Showinfo_outline
2931342..31833PP_00029; phosphoribosyl carboxyaminoimidazole mutase0.0Showinfo_outline
3032238..33500PP_00030; phosphoribosylamine--glycine ligase0.0Showinfo_outline
3133622..35169PP_00031; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/inosine monophosphate cyclohydrolase0.0Showinfo_outline
3235185..35730PP_00032; phosphoribosylglycinamide formyltransferase0.0Showinfo_outline
3335727..36749PP_00033; phosphoribosylaminoimidazole synthetase0.0Showinfo_outline
3436794..38236PP_00034; amidophosphoribosyltransferase0.0Showinfo_outline
3538249..41974PP_00035; phosphoribosylformylglycinamidine synthase0.0Showinfo_outline
3642031..42738PP_00036; phosphoribosylaminoimidazolesuccinocarboxamide synthase0.0Showinfo_outline
3742908..44257PP_00037; competence protein ComB0.0Showinfo_outline
3844270..46423PP_00038; peptide ABC transporter ATP-binding protein0.0Showinfo_outline
3946635..46844PP_00039; bacteriocin immunity protein0.0Showinfo_outline
4046869..47057PP_00040; sodium:proton antiporter0.0Showinfo_outline
4147056..47277PP_00041; hypothetical protein0.0Showinfo_outline
4247357..47539PP_00042; bacteriocin0.0Showinfo_outline
4347564..47755PP_00043; bacteriocin0.0Showinfo_outline
4448074..48310PP_00044; acyl carrier protein0.0Showinfo_outline
4548316..49308PP_00045; phosphate acyltransferase0.0Showinfo_outline
4649305..50075PP_00046; DNA repair protein RecO0.0Showinfo_outline
4750072..51241PP_00047; aromatic amino acid aminotransferase0.0Showinfo_outline
4851390..52400PP_00048; hypothetical protein0.0Showinfo_outline
4952428..52865PP_00049; CoA-binding protein0.0Showinfo_outline

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

lock_open

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

lock_open
Click on a region or gene to view details

We require the use of cookies for essential features like storing your previously submitted PHASTEST queries. Rejecting the usage of cookies will result in certain features being disabled. By clicking ACCEPT or continuing to use the website you are agreeing to our use of cookies.

ACCEPT