Submission Results

Sequence Name: Not Available

GenBank Accession Number: CP107386.1

Download Results: CP107386.1.PHASTEST.zip

gi|00000000|ref|NC_000000| gi||ref|| Klebsiella pneumoniae strain CRKP_29 plasmid unnamed3, complete 111727, gc%: 48.95%

Download summary as .txt file:summary.txt file_download

Total:2 prophage regions have been identified, of which 1 regions are intact, 0 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
180.4Kbintact130771-80454 info_outlinePHAGE_Salmon_SSU5_NC_018843(58)49.20%Show info_outline
220.9Kbquestionable703290403-111370 info_outlinePHAGE_Salmon_SSU5_NC_018843(31)49.76%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|CP107386.1| gi||ref|| Klebsiella pneumoniae strain CRKP_29 plasmid unnamed3, complete 111727, gc%: 48.95%

Download details as .txt file:detail.txt file_download

Tail protein
Fiber protein
Holin
Phage-like protein
Hypothetical protein
DNA Helicase
Integrase
Replication protein
Exonuclease
Repressor
Terminase
Portal protein
Head protein

intact

Region 1, total 68 CDS

#CDS PositionBLAST HitE-ValueSequence
11..4539PP_00001;putative tail tape measure protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
24583..4918PP_00002;putative minor tail protein M;phage;-;PHAGE_Salmon_SSU5_NC_0188433.76e-67Show info_outline
35005..5703PP_00003;putative minor tail protein L;phage;-;PHAGE_Salmon_SSU5_NC_0188434.02e-158Show info_outline
45696..6493PP_00004;putative phage tail protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.69e-175Show info_outline
56481..7092PP_00005;putative phage tail protein;phage;-;PHAGE_Salmon_SSU5_NC_0188439.93e-112Show info_outline
67109..19279PP_00006;putative phage tail protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
719332..20831PP_00007;tail fibers protein;phage;-;PHAGE_Escher_ECA2_NC_0477662.02e-36Show info_outline
820928..21251PP_00008;putative holin;phage;-;PHAGE_Salmon_SSU5_NC_0188435.91e-70Show info_outline
921265..21957PP_00009;putative endolysin;phage;-;PHAGE_Salmon_SSU5_NC_0188437.93e-156Show info_outline
1021960..22211PP_00010;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.95e-34Show info_outline
1122162..22359PP_00011;putative Rz1 protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.23e-26Show info_outline
1222414..22935PP_00012;DNA ligase;phage;-;PHAGE_Serrat_2050HW_NC_0486683.53e-10Show info_outline
1323175..23840PP_00013;putative ParA family protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.4e-131Show info_outline
1423840..24202PP_00014;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188435.48e-63Show info_outline
1524610..25044PP_00016;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.28e-27Show info_outline
1625037..25447PP_00017;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188438.66e-28Show info_outline
1725630..26355PP_00018;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.67e-162Show info_outline
1826420..27760PP_00019;putative DNA helicase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1927908..29032PP_00020;putative DNA primase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2030539..31327PP_00022;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.18e-92Show info_outline
2131407..31874PP_00023;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.26e-67Show info_outline
2231874..33196PP_00024;putative DNA ligase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2333196..33372PP_00025;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.93e-23Show info_outline
2433356..33571PP_00026;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.45e-32Show info_outline
2537261..38034PP_00029;PhoH;phage;-;PHAGE_Erwini_PhiEaH1_NC_0236101.02e-118Show info_outline
2638042..38410PP_00030;putative glutaredoxin;phage;-;PHAGE_Pseudo_OBP_NC_0165714.1e-14Show info_outline
2739120..39530PP_00032;hypothetical protein;phage;-;PHAGE_Escher_HK639_NC_0161586.24e-17Show info_outline
2840304..41404PP_00034;bacteriophage integrase protein;phage;-;PHAGE_Phage_Gifsy_1_NC_0103922.67e-23Show info_outline
2941399..41779PP_00035;hypothetical protein;phage;-;PHAGE_Rhizob_RHEph10_NC_0342489.35e-10Show info_outline
3042382..44667PP_00037;putative porphyrin biosynthetic protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3144764..45996PP_00038;putative porphyrin biosynthetic protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3246177..49695PP_00039;DNA polymerase III alpha subunit;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3349710..50135PP_00040;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188436.86e-82Show info_outline
3450375..50755PP_00041;hypothetical protein;phage;-;PHAGE_Entero_mEp460_NC_0197161.19e-58Show info_outline
3551231..51662PP_00043;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.02e-91Show info_outline
3651782..52789PP_00044;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3752799..53794PP_00045;DNA polymerase I;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3853794..54060PP_00046;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188433.33e-49Show info_outline
3954063..55139PP_00047;putative RecA-like recombinase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4055673..55852PP_00048;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.99e-12Show info_outline
4155849..56184PP_00049;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188433.68e-46Show info_outline
4256184..56396PP_00050;putative Cre-associated protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.92e-36Show info_outline
4356848..58065PP_00051;putative replication protein RepA;phage;-;PHAGE_Salmon_SSU5_NC_0188437.67e-98Show info_outline
4458266..58910PP_00052;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.35e-126Show info_outline
4559224..60783PP_00054;gp19;phage;-;PHAGE_Entero_ES18_NC_0069494.2e-92Show info_outline
4661436..62521PP_00055;putative exonuclease subunit 1;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4762521..62754PP_00056;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.09e-24Show info_outline
4862751..64667PP_00057;putative exonuclease subunit 2;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4964657..65403PP_00058;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188437.64e-105Show info_outline
5065413..65982PP_00059;putative ribonuclease H-like domain-containing protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.11e-127Show info_outline
5166058..68361PP_00060;putative ribonucleotide-diphosphate reductase, alpha subunit;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5268492..69634PP_00061;putative ribonucleotide-diphosphate reductase, beta subunit;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5369712..70587PP_00062;putative phosphoribosyl-ATP pyrophosphohydrolase-like domain-containing protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5470781..71884PP_00063;putative thymidylate synthase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5571886..72299PP_00064;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.13e-71Show info_outline
5672296..72772PP_00065;putative dihydrofolate reductase;phage;-;PHAGE_Salmon_SSU5_NC_0188437.18e-90Show info_outline
5772772..73416PP_00066;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.34e-122Show info_outline
5873480..73899PP_00067;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188438.34e-72Show info_outline
5973909..74466PP_00068;putative exonuclease;phage;-;PHAGE_Salmon_SSU5_NC_0188435.59e-114Show info_outline
6074592..75425PP_00069;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.44e-100Show info_outline
6175610..76203PP_00070;putative N-6-adenine-methyltransferase;phage;-;PHAGE_Salmon_SSU5_NC_0188431.34e-138Show info_outline
6276406..76639PP_00071;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.1e-44Show info_outline
6377229..77837PP_00072;putative ribonuclease H;phage;-;PHAGE_Salmon_SSU5_NC_0188433.48e-143Show info_outline
6477861..78523PP_00073;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.06e-35Show info_outline
6578824..79249PP_00074;putative tellurite or colicin resistance protein;phage;-;PHAGE_Salmon_SJ46_NC_0311296.57e-77Show info_outline
6679249..79404PP_00075;hypothetical protein;phage;-;PHAGE_Escher_Pollock_NC_0273811.78e-09Show info_outline
6779532..80110PP_00076;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.24e-73Show info_outline
6880239..80454PP_00077;putative DNA modification methylase;phage;-;PHAGE_Salmon_SSU5_NC_0188433.26e-20Show info_outline

questionable

Region 2, total 31 CDS

#CDS PositionBLAST HitE-ValueSequence
190403..90621PP_00082;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188437.28e-37Show info_outline
290634..90846PP_00083;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.63e-32Show info_outline
390983..91294PP_00084;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188434.73e-45Show info_outline
491414..91821PP_00085;Gp62;phage;-;PHAGE_Klebsi_phiKO2_NC_0058574.05e-31Show info_outline
592031..92228PP_00086;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188433.3e-34Show info_outline
692433..92915PP_00088;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188439.48e-85Show info_outline
793510..93713PP_00089;putative MIT family metal ion transporter CorA;phage;-;PHAGE_Salmon_SSU5_NC_0188438.67e-39Show info_outline
893764..94414PP_00090;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188436.43e-145Show info_outline
995048..95578PP_00091;putative repressor of phase 1 flagellin;phage;-;PHAGE_Salmon_SSU5_NC_0188432.76e-92Show info_outline
1095734..96171PP_00092;hypothetical protein;phage;-;PHAGE_Escher_HK639_NC_0161583.38e-21Show info_outline
1196222..96497PP_00093;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.01e-39Show info_outline
1296500..98059PP_00094;putative helicase;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1398143..98823PP_00095;putative ParB-like nuclease domain-containing protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.43e-145Show info_outline
1498823..99491PP_00096;putative ParB-like nuclease domain-containing protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.18e-144Show info_outline
1599488..100126PP_00097;putative ABC transporter ATP-binding protein;phage;-;PHAGE_Salmon_SSU5_NC_0188435.69e-151Show info_outline
16100119..100373PP_00098;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.68e-53Show info_outline
17100379..101269PP_00099;putative ABC transporter ATP-binding protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
18101279..101545PP_00100;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.29e-41Show info_outline
19101700..102362PP_00101;putative DNA-binding protein;phage;-;PHAGE_Salmon_SSU5_NC_0188433.78e-109Show info_outline
20102365..103621PP_00102;putative terminase large subunit;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
21103654..105228PP_00103;putative phage portal protein;phage;-;PHAGE_Rhizob_RHEph10_NC_0342481.26e-166Show info_outline
22105251..106150PP_00104;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
23106177..107055PP_00105;putative major capsid protein;phage;-;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
24107134..107562PP_00106;tail assembly protein;phage;-;PHAGE_Salmon_SE4_NC_0487643.42e-22Show info_outline
25107610..108044PP_00107;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.83e-84Show info_outline
26108044..108877PP_00108;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188431.41e-176Show info_outline
27108975..109319PP_00109;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188435.99e-73Show info_outline
28109310..109783PP_00110;putative head-to-tail joining protein;phage;-;PHAGE_Rhizob_RHEph10_NC_0342481.73e-08Show info_outline
29109785..110177PP_00111;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188433.26e-63Show info_outline
30110245..110991PP_00112;putative tail protein;phage;-;PHAGE_Rhizob_RHEph10_NC_0342482.06e-24Show info_outline
31111053..111370PP_00113;hypothetical protein;phage;-;PHAGE_Salmon_SSU5_NC_0188432.75e-64Show info_outline

gi|00000000|ref|CP107386.1| gi||ref|| Klebsiella pneumoniae strain CRKP_29 plasmid unnamed3, complete 111727, gc%: 48.95%

Download details as .txt file:detail.txt file_download

Non phage-like protein

Bacterial, total 3 CDS

#CDS PositionBLAST HitE-ValueSequence
180516..83632PP_00078; type I restriction endonuclease subunit R [Moraxella macacae]0.0Showinfo_outline
283708..84904PP_00079; restriction endonuclease subunit S [Caballeronia fortuita]2.363633e-125Showinfo_outline
384901..86457PP_00080; type I restriction-modification system subunit M [Neptuniibacter pectenicola]6.618932e-245Showinfo_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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