Submission Results

Sequence Name: Not Available

GenBank Accession Number: WUUH01000001.1

GenInfo (GI) Number: 0000000000

Download Results: WUUH01000001.1.PHASTER.zip

gi|00000000|ref|WUUH01000001.1| Streptococcus pneumoniae strain lb001 scaffold1, whole genome 1064648, gc%: 38.15%

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
157Kbquestionable8058325834-382899 info_outlinePHAGE_Strept_315.6_NC_004589(15)38.47%Show info_outline
238.6Kbintact10041746690-785335 info_outlinePHAGE_Strept_phiARI0131_2_NC_031941(8)41.36%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|WUUH01000001.1| Streptococcus pneumoniae strain lb001 scaffold1, whole genome 1064648, gc%: 38.15%

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 63 CDS

#CDS PositionBLAST HitE-ValueSequence
1325834..325845attL0.0Showinfo_outline
2331991..333153PHAGE_Staphy_phiETA_NC_003288: similar to phage phi 11 integrase; GRB29_01620; phage(gi17426229)6.89e-22Showinfo_outline
3333560..334009MarR family transcriptional regulator; GRB29_016250.0Showinfo_outline
4334002..335804PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; GRB29_01630; phage(gi9630145)1.24e-24Showinfo_outline
5335794..337542PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; GRB29_01635; phage(gi9630145)9.19e-26Showinfo_outline
6337594..337605attL0.0Showinfo_outline
7337785..338504hypothetical protein; GRB29_016400.0Showinfo_outline
8338642..339990metallophosphoesterase; GRB29_016450.0Showinfo_outline
9339983..340552uracil-DNA glycosylase family protein; GRB29_016500.0Showinfo_outline
10340651..340827PHAGE_Klebsi_ST13_OXA48phi12.1_NC_049453: hypothetical protein; GRB29_01655; phage(gi100002)2.37e-12Showinfo_outline
11341050..342225PHAGE_Staphy_StB20_like_NC_028821: capsule biosynthesis protein CapA; GRB29_01660; phage(gi971746522)4.39e-35Showinfo_outline
12342219..342764GNAT family N-acetyltransferase; GRB29_016650.0Showinfo_outline
13342940..34325450S ribosomal protein L21; GRB29_016700.0Showinfo_outline
14343260..343595PHAGE_Lactoc_PLgT_1_NC_031016: hypothetical protein; GRB29_01675; phage(gi100027)1.10e-08Showinfo_outline
15343616..34390950S ribosomal protein L27; GRB29_016800.0Showinfo_outline
16complement(343995..345098)PHAGE_Strept_315.6_NC_004589: putative integrase; GRB29_01685; phage(gi28876488)1.08e-84Showinfo_outline
17complement(345220..345633)hypothetical protein; GRB29_016900.0Showinfo_outline
18complement(345637..346071)hypothetical protein; GRB29_016950.0Showinfo_outline
19complement(346082..346465)PHAGE_Strept_315.5_NC_004588: putative cI-like repressor, metallo-prtoeinase motif; GRB29_01700; phage(gi28876433)8.66e-44Showinfo_outline
20complement(346489..346851)PHAGE_Strept_phiBHN167_NC_022791: phage DNA binding protein; GRB29_01705; phage(gi557745677)4.53e-50Showinfo_outline
21complement(347760..348548)hypothetical protein; GRB29_017100.0Showinfo_outline
22348603..348794PHAGE_Strept_phiARI0468_2_NC_031923: DNA helicase; GRB29_01715; phage(gi100044)1.93e-26Showinfo_outline
23348876..349142DNA-binding protein; GRB29_017200.0Showinfo_outline
24349445..349816PHAGE_Strept_Str_PAP_1_NC_028666: hypothetical protein; GRB29_01725; phage(gi966198675)8.89e-38Showinfo_outline
25349803..350033PHAGE_Strept_phiARI0131_1_NC_031901: putative transcriptional regulator; GRB29_01730; phage(gi100045)7.04e-35Showinfo_outline
26350047..350766PHAGE_Strept_phiARI0460_1_NC_031913: hypothetical protein; GRB29_01735; phage(gi100040)1.48e-118Showinfo_outline
27350759..351238PHAGE_Strept_SMP_NC_008721: hypothetical protein; GRB29_01740; phage(gi119953762)2.99e-98Showinfo_outline
28351235..351582PHAGE_Strept_EJ_1_NC_005294: hypothetical protein; GRB29_01745; phage(gi39653697)1.09e-13Showinfo_outline
29351563..352048PHAGE_Strept_phiARI0131_1_NC_031901: DNA adenine methyltransferase; GRB29_01750; phage(gi100041)2.28e-98Showinfo_outline
30352011..353201PHAGE_Strept_phiARI0468_2_NC_031923: holin; GRB29_01755; phage(gi100034)0.0Showinfo_outline
31353306..353623PHAGE_Strept_phiARI0460_1_NC_031913: hypothetical protein; GRB29_01760; phage(gi100035)7.32e-52Showinfo_outline
32353623..354432PHAGE_Strept_phiARI0460_1_NC_031913: holin; GRB29_01765; phage(gi100034)1.12e-148Showinfo_outline
33354452..354958PHAGE_Strept_phiARI0131_1_NC_031901: putative phosphoesterase; GRB29_01770; phage(gi100037)1.29e-112Showinfo_outline
34355004..355825PHAGE_Strept_phiARI0460_1_NC_031913: u-spanin; GRB29_01775; phage(gi100032)1.13e-179Showinfo_outline
35355828..357153PHAGE_Strept_phiARI0460_1_NC_031913: hypothetical protein; GRB29_01780; phage(gi100031)0.0Showinfo_outline
36357461..357808PHAGE_Strept_SMP_NC_008721: hypothetical protein; GRB29_01785; phage(gi119953770)1.68e-43Showinfo_outline
37358085..358363PHAGE_Strept_SMP_NC_008721: hypothetical protein; GRB29_01790; phage(gi119953773)1.23e-28Showinfo_outline
38358365..358544PHAGE_Strept_phiNJ2_NC_019418: hypothetical protein; GRB29_01795; phage(gi414090235)7.52e-28Showinfo_outline
39358755..359216PHAGE_Strept_DCC1738_NC_024361: phage protein; GRB29_01800; phage(gi658307499)1.38e-95Showinfo_outline
40359267..359352tRNA0.0Showinfo_outline
41359590..360024PHAGE_Brocho_NF5_NC_015252: gp1; GRB29_01810; phage(gi327197585)2.57e-41Showinfo_outline
42360008..361288PHAGE_Strept_315.6_NC_004589: putative terminase large subunit; GRB29_01815; phage(gi28876465)0.0Showinfo_outline
43361298..362815PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01820; phage(gi28876464)0.0Showinfo_outline
44362796..363713PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01825; phage(gi28876463)1.71e-127Showinfo_outline
45364029..364610PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01830; phage(gi28876460)2.57e-47Showinfo_outline
46364617..365513PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01835; phage(gi28876459)1.46e-157Showinfo_outline
47365519..365875PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01840; phage(gi28876458)5.83e-31Showinfo_outline
48365883..366161PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01845; phage(gi28876457)1.51e-33Showinfo_outline
49366158..366502PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01850; phage(gi28876456)2.08e-32Showinfo_outline
50366512..366868PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01855; phage(gi28876455)2.72e-44Showinfo_outline
51366887..367462PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01860; phage(gi28876454)5.55e-93Showinfo_outline
52367526..368014PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01865; phage(gi28876453)2.40e-37Showinfo_outline
53368338..372552PHAGE_Strept_315.6_NC_004589: putative tail protein; GRB29_01870; phage(gi28876451)0.0Showinfo_outline
54372562..373404PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01875; phage(gi28876450)1.51e-101Showinfo_outline
55373420..378396PHAGE_Strept_315.6_NC_004589: hypothetical protein; GRB29_01880; phage(gi28876449)0.0Showinfo_outline
56378572..378985hypothetical protein; GRB29_018850.0Showinfo_outline
57378960..379142PHAGE_Strept_T12_NC_028700: hypothetical protein; GRB29_01890; phage(gi966201538)2.18e-15Showinfo_outline
58379144..379452PHAGE_Strept_315.4_NC_004587: hypothetical protein; GRB29_01895; phage(gi28876324)1.86e-33Showinfo_outline
59379442..379696PHAGE_Strept_EJ_1_NC_005294: holin; GRB29_01900; phage(gi39653746)1.10e-32Showinfo_outline
60379706..380464PHAGE_Strept_O1205_NC_004303: putative tail protein; GRB29_01905; phage(gi23455889)1.72e-29Showinfo_outline
61380628..380882PHAGE_Strept_phiARI0031_NC_031910: methyltransferase type 11; GRB29_01910; phage(gi100001)2.00e-05Showinfo_outline
62381720..381731attR0.0Showinfo_outline
63382899..382910attR0.0Showinfo_outline

Region 2, total 43 CDS

#CDS PositionBLAST HitE-ValueSequence
1746690..746701attL0.0Showinfo_outline
2complement(746770..748086)PHAGE_Bacill_WBeta_NC_007734: putative site-specific recombinase; GRB29_03655; phage(gi85701406)5.24e-35Showinfo_outline
3complement(748025..749266)PHAGE_Faecal_FP_Brigit_NC_047909: methyltransferase type 11; GRB29_03660; phage(gi100001)1.01e-32Showinfo_outline
4complement(749489..750958)PHAGE_Strept_Str_PAP_1_NC_028666: endolysin; GRB29_03665; phage(gi966198635)2.03e-48Showinfo_outline
5complement(750965..751360)PHAGE_Paenib_PG1_NC_021558: holin; GRB29_03670; phage(gi514231208)3.15e-23Showinfo_outline
6complement(751338..751706)PHAGE_Strept_phiARI0462_NC_031942: hypothetical protein; GRB29_03675; phage(gi100004)1.57e-42Showinfo_outline
7complement(751712..751918)PHAGE_Strept_phiARI0131_1_NC_031901: hypothetical protein; GRB29_03680; phage(gi100009)2.42e-10Showinfo_outline
8complement(751931..756478)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03685; phage(gi100005)7.31e-127Showinfo_outline
9complement(756478..757200)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03690; phage(gi100006)8.36e-104Showinfo_outline
10complement(757197..760055)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03695; phage(gi100007)0.0Showinfo_outline
11complement(760238..760657)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03700; phage(gi100008)9.09e-63Showinfo_outline
12complement(760668..761237)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03705; phage(gi100009)5.34e-67Showinfo_outline
13complement(761239..761565)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03710; phage(gi100010)1.24e-11Showinfo_outline
14complement(761572..761940)PHAGE_Strept_phiARI0131_2_NC_031941: hypothetical protein; GRB29_03715; phage(gi100011)2.43e-18Showinfo_outline
15complement(761933..762271)PHAGE_Geobac_E2_NC_009552: putative head-tail adaptor; GRB29_03720; phage(gi148747735)2.29e-05Showinfo_outline
16complement(762271..762531)phage gp6-like head-tail connector protein; GRB29_037250.0Showinfo_outline
17complement(762531..763736)PHAGE_Burkho_KS9_NC_013055: major capsid protein gp5; GRB29_03730; phage(gi255033737)4.90e-41Showinfo_outline
18complement(763755..764450)PHAGE_Clostr_phiCTC2B_NC_030951: holin; GRB29_03735; phage(gi100034)5.14e-37Showinfo_outline
19complement(764443..765726)PHAGE_Burkho_phi6442_NC_009235: gp4, phage portal protein, HK97 family; GRB29_03740; phage(gi134288632)7.70e-88Showinfo_outline
20complement(765784..766128)PHAGE_Prochl_MED4_213_NC_020845: hypothetical protein; GRB29_03745; phage(gi472340277)5.27e-08Showinfo_outline
21complement(766265..766603)type II toxin-antitoxin system RelE/ParE family toxin; GRB29_037500.0Showinfo_outline
22complement(766603..766905)type II toxin-antitoxin system RelB/DinJ family antitoxin; GRB29_037550.0Showinfo_outline
23complement(766965..768557)PHAGE_Strept_Rowa_NC_047906: hypothetical protein; GRB29_03760; phage(gi100002)1.21e-98Showinfo_outline
24complement(768554..769027)PHAGE_Burkho_phi1026b_NC_005284: gp1; GRB29_03765; phage(gi38707891)5.36e-19Showinfo_outline
25complement(769078..769308)hypothetical protein; GRB29_037700.0Showinfo_outline
26complement(769310..769522)PHAGE_Bacill_SP_15_NC_031245: hypothetical protein; GRB29_03775; phage(gi100310)4.27e-09Showinfo_outline
27complement(769524..769772)hypothetical protein; GRB29_037800.0Showinfo_outline
28complement(769866..771125)PHAGE_Clostr_CDKM15_NC_048643: head morphogenesis protein; GRB29_03785; phage(gi100068)3.97e-118Showinfo_outline
29complement(771122..772378)PHAGE_Faecal_FP_Epona_NC_047910: u-spanin; GRB29_03790; phage(gi100032)6.39e-112Showinfo_outline
30complement(772350..772811)helix-turn-helix domain-containing protein; GRB29_037950.0Showinfo_outline
31complement(773110..773475)PHAGE_Bacill_phi105_NC_004167: hypothetical protein; GRB29_03800; phage(gi22855043)9.26e-29Showinfo_outline
32complement(773500..773871)hypothetical protein; GRB29_038050.0Showinfo_outline
33complement(773904..774940)PHAGE_Faecal_FP_Brigit_NC_047909: hypothetical protein; GRB29_03810; phage(gi100017)6.78e-12Showinfo_outline
34complement(774988..775170)PHAGE_Agroba_Atu_ph07_NC_042013: hypothetical protein; GRB29_03815; phage(gi100594)4.40e-08Showinfo_outline
35complement(775365..775841)hypothetical protein; GRB29_038200.0Showinfo_outline
36complement(775834..777210)PHAGE_Entero_phiFL4A_NC_013644: DNA helicase; GRB29_03825; phage(gi281416462)8.84e-162Showinfo_outline
37complement(777191..777472)PHAGE_Coryne_StAB_NC_048780: recombination protein; GRB29_03830; phage(gi100049)5.46e-24Showinfo_outline
38complement(777757..780042)PHAGE_Lactob_A2_NC_004112: putative primase; GRB29_03835; phage(gi22296557)3.94e-57Showinfo_outline
39780459..780782hypothetical protein; GRB29_038400.0Showinfo_outline
40780775..781896PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; GRB29_03845; phage(gi100016)1.31e-116Showinfo_outline
41781901..782449PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; GRB29_03850; phage(gi100017)2.04e-68Showinfo_outline
42782684..784639PHAGE_Coryne_SamW_NC_048069: hypothetical protein; GRB29_03855; phage(gi100043)0.0Showinfo_outline
43785335..785346attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 1064648 bps
Phages: 2
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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