Submission Results

Sequence Name: Not Available

GenBank Accession Number: VXKC01000006.1

GenInfo (GI) Number: 0000000000

Download Results: VXKC01000006.1.PHASTER.zip

gi|00000000|ref|VXKC01000006.1| Lactococcus lactis subsp. hordniae strain CCUG 32210T 103285, gc%: 34.76%

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
164.7Kbintact130608166-72892 info_outlinePHAGE_Lactoc_TP901_1_NC_002747(7)35.39%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|VXKC01000006.1| Lactococcus lactis subsp. hordniae strain CCUG 32210T 103285, gc%: 34.76%

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 64 CDS

#CDS PositionBLAST HitE-ValueSequence
18166..8179attL0.0Showinfo_outline
223076..24161PHAGE_Mycoba_Mindy_NC_029093: integrase; F4V48_03290; phage(gi985759813)8.30e-09Showinfo_outline
3complement(24206..25549)methylenetetrahydrofolate--tRNA-(uracil(54)- C(5))-methyltransferase (FADH(2)-oxidizing) TrmFO; F4V48_032950.0Showinfo_outline
4complement(25621..27753)type I DNA topoisomerase; F4V48_033000.0Showinfo_outline
5complement(28014..28157)DNA processing protein DprA; F4V48_033050.0Showinfo_outline
628820..30652PHAGE_Acinet_Bphi_B1251_NC_019541: putative restriction-modification protein; F4V48_03310; phage(gi423261981)7.31e-13Showinfo_outline
730624..31577hypothetical protein; F4V48_033150.0Showinfo_outline
8complement(31612..32797)PHAGE_Lactoc_ul36_NC_004066: putative lysin; F4V48_03320; phage(gi21716129)0.0Showinfo_outline
9complement(32794..33018)PHAGE_Lactoc_ul36_NC_004066: putative holin; F4V48_03325; phage(gi21716128)4.23e-45Showinfo_outline
10complement(33032..33253)PHAGE_Lactoc_TP901_1_NC_002747: ORF50; F4V48_03330; phage(gi13786581)3.14e-28Showinfo_outline
11complement(33279..34715)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; F4V48_03335; phage(gi281416380)6.73e-64Showinfo_outline
12complement(34697..36826)PHAGE_Lister_LP_030_2_NC_021539: putative tail endopeptidase; F4V48_03340; phage(gi514051949)2.72e-61Showinfo_outline
13complement(36823..37584)PHAGE_Strept_PH15_NC_010945: hypothetical protein; F4V48_03345; phage(gi190151463)2.03e-17Showinfo_outline
14complement(37584..37922)PHAGE_Lactob_CL1_NC_028888: tape measure; F4V48_03350; phage(gi971752644)1.78e-07Showinfo_outline
15complement(37977..40553)PHAGE_Lactoc_98201_NC_031064: ssDNA binding protein; F4V48_03355; phage(gi100044)8.66e-106Showinfo_outline
16complement(40553..41143)PHAGE_Strept_A25_NC_028697: hypothetical protein; F4V48_03360; phage(gi966201407)8.82e-39Showinfo_outline
17complement(41152..41523)hypothetical protein; F4V48_033650.0Showinfo_outline
18complement(41849..42262)PHAGE_Bacill_PBC1_NC_017976: major capsid protein gpP; F4V48_03370; phage(gi389060336)3.00e-25Showinfo_outline
19complement(42265..42663)PHAGE_Lactob_phig1e_NC_004305: minor capsid protein; F4V48_03375; phage(gi23455807)1.27e-34Showinfo_outline
20complement(42663..43016)PHAGE_Strept_PH15_NC_010945: putative minor capsid protein; F4V48_03380; phage(gi190151457)3.46e-38Showinfo_outline
21complement(43016..43354)hypothetical protein; F4V48_033850.0Showinfo_outline
22complement(43354..43737)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; F4V48_03390; phage(gi56694910)4.94e-19Showinfo_outline
23complement(43765..44013)PHAGE_Lactoc_98201_NC_031064: DNA polymerase; F4V48_03395; phage(gi100036)9.08e-27Showinfo_outline
24complement(44031..44855)PHAGE_Lactoc_TP901_1_NC_002747: MHP; F4V48_03400; phage(gi13786567)1.07e-76Showinfo_outline
25complement(45048..45290)PHAGE_Strept_phiNJ2_NC_019418: hypothetical protein; F4V48_03405; phage(gi414090224)3.72e-11Showinfo_outline
26complement(45259..45474)PHAGE_Strept_5093_NC_012753: putative scaffolding protein; F4V48_03410; phage(gi238801898)3.56e-06Showinfo_outline
27complement(45562..46770)PHAGE_Strept_phiNJ2_NC_019418: putative phage minor capsid protein 2; F4V48_03415; phage(gi414090225)9.59e-133Showinfo_outline
28complement(46773..48257)PHAGE_Bacill_BCJA1c_NC_006557: portal; F4V48_03420; phage(gi56694903)9.14e-121Showinfo_outline
29complement(48268..49560)PHAGE_Bacill_PBC1_NC_017976: terminase large subunit; F4V48_03425; phage(gi389060324)1.79e-157Showinfo_outline
30complement(49547..50092)PHAGE_Lactoc_PLgT_1_NC_031016: hypothetical protein; F4V48_03430; phage(gi100031)8.38e-67Showinfo_outline
31complement(50370..50771)PHAGE_Lactoc_lato_NC_004746: hypothetical protein; F4V48_03435; phage(gi30089889)1.00e-85Showinfo_outline
32complement(50851..51144)PHAGE_Lactoc_TP901_1_NC_002747: ORF27; F4V48_03440; phage(gi13786558)4.71e-43Showinfo_outline
33complement(51276..51521)PHAGE_Lactoc_98201_NC_031064: hypothetical protein; F4V48_03445; phage(gi100027)4.24e-14Showinfo_outline
34complement(51666..52196)PHAGE_Thermu_phiYS40_NC_008584: sugar-phospahte nucleotidyltransferase; F4V48_03450; phage(gi118197649)4.82e-40Showinfo_outline
35complement(52252..53013)PHAGE_Geobac_GBK2_NC_023612: DNA methylase; F4V48_03455; phage(gi589893811)1.54e-100Showinfo_outline
36complement(53006..53332)hypothetical protein; F4V48_034600.0Showinfo_outline
37complement(53517..53771)hypothetical protein; F4V48_034650.0Showinfo_outline
38complement(53764..54156)PHAGE_Entero_phiFL2A_NC_013643: hypothetical protein; F4V48_03470; phage(gi281416517)9.45e-14Showinfo_outline
39complement(54153..54710)PHAGE_Lactoc_TP901_1_NC_002747: ORF19; F4V48_03475; phage(gi13786550)1.74e-17Showinfo_outline
40complement(54691..54975)PHAGE_Lactoc_63301_NC_031017: exonuclease A; F4V48_03480; phage(gi100018)8.14e-35Showinfo_outline
41complement(55172..55423)hypothetical protein; F4V48_034850.0Showinfo_outline
42complement(55410..55553)PHAGE_Lactoc_bIL309_NC_002668: Orf18; F4V48_03490; phage(gi13095823)3.76e-19Showinfo_outline
43complement(55661..55900)PHAGE_Lactoc_TP901_1_NC_002747: ORF16; F4V48_03495; phage(gi13786547)3.19e-52Showinfo_outline
44complement(55901..56320)PHAGE_Lactoc_TP901_1_NC_002747: RUS; F4V48_03500; phage(gi13786546)1.17e-96Showinfo_outline
45complement(56323..56523)hypothetical protein; F4V48_035050.0Showinfo_outline
46complement(56539..56781)hypothetical protein; F4V48_035100.0Showinfo_outline
47complement(56774..57661)PHAGE_Lactoc_50101_NC_031040: hypothetical protein; F4V48_03515; phage(gi100012)4.54e-60Showinfo_outline
4857678..57691attR0.0Showinfo_outline
49complement(57926..58726)PHAGE_Strept_9872_NC_031094: membrane-associated initiation of head vertex; F4V48_03520; phage(gi100034)3.81e-84Showinfo_outline
50complement(58719..59555)PHAGE_Lactoc_63301_NC_031017: hypothetical protein; F4V48_03525; phage(gi100010)5.50e-152Showinfo_outline
51complement(59552..59773)PHAGE_Staphy_96_NC_007057: ORF061; F4V48_03530; phage(gi66395939)1.16e-09Showinfo_outline
5259802..59814attL0.0Showinfo_outline
53complement(59889..60494)PHAGE_Entero_LY0322_NC_042125: hypothetical protein; F4V48_03535; phage(gi100064)6.88e-37Showinfo_outline
54complement(60424..60732)hypothetical protein; F4V48_035400.0Showinfo_outline
55complement(60716..60895)hypothetical protein; F4V48_035450.0Showinfo_outline
56complement(60909..61145)PHAGE_Staphy_29_NC_007061: ORF049; F4V48_03550; phage(gi66396236)2.07e-10Showinfo_outline
5761473..61574PHAGE_Lactoc_28201_NC_031013: DNA topoisomerase medium subunit; F4V48_03555; phage(gi100004)7.53e-12Showinfo_outline
5861900..62406hypothetical protein; F4V48_035600.0Showinfo_outline
5962638..63996PHAGE_Lactoc_TP901_1_NC_002747: INT; F4V48_03565; phage(gi13786532)2.37e-112Showinfo_outline
60complement(64027..64740)PHAGE_Thermu_OH2_NC_021784: SMF family protein; F4V48_03570; phage(gi526118339)5.60e-33Showinfo_outline
61complement(64887..65267)RidA family protein; F4V48_035750.0Showinfo_outline
62complement(65308..66018)acetolactate decarboxylase; F4V48_035800.0Showinfo_outline
63complement(66138..67388)PHAGE_Lactoc_P087_NC_012663: putative cysteine synthase; F4V48_03585; phage(gi229605000)6.26e-05Showinfo_outline
6472892..72904attR0.0Showinfo_outline
Lactococcus lactis subsp
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 103285 bps
Phages: 1
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Click on a region in the genome above to show details here.
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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