UHGV-0019669

Genome information

Genome length 40,454 bps

CDS count 69

Completeness 95.26% (high-quality)

geNomad score 0.9727

Prediction confidence Confident

Genome information
Genome ID	UHGV-0019669
vOTU ID	vOTU-011760
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_MoBio_hadza-E-H_A_21_1706__NODE_1575_length_40454_cov_5.237957
BioSample	SAMEA4765986
Country	Tanzania
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	95.26% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	18
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9727
Virus hallmark genes (geNomad)	14
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	59.19
Jumbo phage	No

Genome content
Genome length	40,454 bps
GC content	62.63%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	69
CDS density	87.86%
Average CDS length	519.48 bps
tRNA count	1
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0019669_1	Pfam	PF07463	NUMOD4 motif	NUMOD4
UHGV-0019669_2	PHROG	phrog_119	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0019669_2	UniRef90	UniRef90_A0A841TUX1	HNH endonuclease	NA
UHGV-0019669_2	eggNOG-mapper	445975.COLSTE_02167	endonuclease activity	NA
UHGV-0019669_2	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0019669_4	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-0019669_4	UniRef90	UniRef90_UPI0004294E15	terminase large subunit	NA
UHGV-0019669_4	eggNOG-mapper	1111121.HMPREF1247_0025	Phage Terminase	NA
UHGV-0019669_4	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-0019669_4	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-0019669_4	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-0019669_4	Structural annotation	PF20441, PF03354, MF_04145, TIGR01547, COG4626	NA	NA
UHGV-0019669_5	PHROG	phrog_12	portal protein	head and packaging
UHGV-0019669_5	UniRef90	UniRef90_UPI000424C3F7	phage portal protein	NA
UHGV-0019669_5	eggNOG-mapper	1111121.HMPREF1247_0024	Phage portal protein	NA
UHGV-0019669_5	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-0019669_5	COG	COG4695	Phage portal protein BeeE	NA
UHGV-0019669_5	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-0019669_6	KOfam	K06904	NA	NA
UHGV-0019669_6	PHROG	phrog_80	head maturation protease	head and packaging
UHGV-0019669_6	UniRef90	UniRef90_UPI0003AE6F4D	HK97 family phage prohead protease	NA
UHGV-0019669_6	eggNOG-mapper	1111121.HMPREF1247_0023	Caudovirus prohead serine protease	NA
UHGV-0019669_6	Pfam	PF04586	Caudovirus prohead serine protease	Peptidase_S78
UHGV-0019669_6	NCBIFam	TIGR01543.1	HK97 family phage prohead protease	NA
UHGV-0019669_6	COG	COG3740	Phage head maturation protease	NA
UHGV-0019669_6	Structural annotation	PF04586, TIGR01543, COG3740	NA	NA
UHGV-0019669_7	PHROG	phrog_10	major head protein	head and packaging
UHGV-0019669_7	UniRef90	UniRef90_A0A1Y4GX93	Phage major capsid protein	NA
UHGV-0019669_7	eggNOG-mapper	411470.RUMGNA_02065	NA	NA
UHGV-0019669_7	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0019669_7	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0019669_7	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0019669_7	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-0019669_8	PHROG	phrog_5223	neck protein	connector
UHGV-0019669_8	UniRef90	UniRef90_A0A290FZN8	DNA packaging protein	NA
UHGV-0019669_8	eggNOG-mapper	1341151.ASZU01000004_gene259	NA	NA
UHGV-0019669_8	NCBIFam	TIGR01560.2	head-tail connector protein	NA
UHGV-0019669_9	PHROG	phrog_1951	head-tail adaptor	connector
UHGV-0019669_9	eggNOG-mapper	1033744.CAEL01000029_gene1279	head-tail adaptor	NA
UHGV-0019669_9	COG	COG5614	Phage head-tail adaptor	NA
UHGV-0019669_9	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-0019669_10	PHROG	phrog_5	tail completion or Neck1 protein	connector
UHGV-0019669_10	UniRef90	UniRef90_UPI000BEE6632	HK97 gp10 family phage protein	NA
UHGV-0019669_10	Structural annotation	PF20039, TIGR01725	NA	NA
UHGV-0019669_11	Structural annotation	PF09646	NA	NA
UHGV-0019669_12	PHROG	phrog_88	major tail protein	tail
UHGV-0019669_12	UniRef90	UniRef90_UPI00102F83A6	phage tail protein	NA
UHGV-0019669_12	eggNOG-mapper	386043.lwe1231	phage tail protein	NA
UHGV-0019669_12	Pfam	PF06488	Phage tail tube protein	L_lac_phage_MSP
UHGV-0019669_12	NCBIFam	TIGR01603.1	major tail protein	NA
UHGV-0019669_12	Structural annotation	PF06488, TIGR01603, COG3498	NA	NA
UHGV-0019669_15	PHROG	phrog_28	tail length tape measure protein	tail
UHGV-0019669_15	UniRef90	UniRef90_UPI000413AFB7	phage tail tape measure protein	NA
UHGV-0019669_15	eggNOG-mapper	1111121.HMPREF1247_0013	Phage tail tape measure protein, TP901 family	NA
UHGV-0019669_15	Pfam	PF10145	Phage-related minor tail protein	PhageMin_Tail
UHGV-0019669_15	NCBIFam	TIGR01760.1	phage tail tape measure protein	NA
UHGV-0019669_15	COG	COG1340	NA	NA
UHGV-0019669_15	Structural annotation	PF10145, TIGR01760, COG5280	NA	NA
UHGV-0019669_16	UniRef90	UniRef90_UPI001EDCD142	phage tail family protein	NA
UHGV-0019669_16	eggNOG-mapper	1680.BADO_1231	NA	NA
UHGV-0019669_16	Structural annotation	PF16774, TIGR01633, COG4722	NA	NA
UHGV-0019669_17	PHROG	phrog_538	minor tail protein	tail
UHGV-0019669_17	UniRef90	UniRef90_A0A1C5PP83	Phage-related holin (Lysis protein)	NA
UHGV-0019669_17	eggNOG-mapper	1256908.HMPREF0373_00466	NA	NA
UHGV-0019669_17	Structural annotation	PF14594, TIGR01665, COG4379	NA	NA
UHGV-0019669_19	PHROG	phrog_9994	NA	unknown function
UHGV-0019669_19	eggNOG-mapper	1111121.HMPREF1247_0855	NA	NA
UHGV-0019669_19	Structural annotation	PF08931, PF20747	NA	NA
UHGV-0019669_20	PHROG	phrog_21718	NA	unknown function
UHGV-0019669_22	PHROG	phrog_16490	NA	unknown function
UHGV-0019669_22	eggNOG-mapper	397290.C810_05212	NA	NA
UHGV-0019669_23	Structural annotation	PF18573, NF033147	NA	NA
UHGV-0019669_25	PHROG	phrog_443	holin	lysis
UHGV-0019669_25	UniRef90	UniRef90_UPI00096A4162	holin	NA
UHGV-0019669_25	eggNOG-mapper	553184.ATORI0001_1165	Putative lactococcus lactis phage r1t holin	NA
UHGV-0019669_25	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-0019669_25	Structural annotation	PF16945	NA	NA
UHGV-0019669_27	PHROG	phrog_21825	endolysin	lysis
UHGV-0019669_27	UniRef90	UniRef90_UPI0011066B38	peptidoglycan-binding protein	NA
UHGV-0019669_27	eggNOG-mapper	702459.BBPR_0931	NLP P60 protein	NA
UHGV-0019669_27	Pfam	PF01471	Putative peptidoglycan binding domain	PG_binding_1
UHGV-0019669_27	COG	COG0791	Cell wall-associated hydrolase, NlpC_P60 family	NA
UHGV-0019669_27	Structural annotation	PF00877, TIGR02594, COG3738	NA	NA
UHGV-0019669_28	KOfam	K14059	int; integrase	NA
UHGV-0019669_28	PHROG	phrog_1	integrase	integration and excision
UHGV-0019669_28	UniRef90	UniRef90_UPI001106575D	tyrosine-type recombinase/integrase	NA
UHGV-0019669_28	eggNOG-mapper	1125712.HMPREF1316_1553	DNA integration	NA
UHGV-0019669_28	Pfam	PF14659	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_3
UHGV-0019669_28	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0019669_28	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0019669_28	Structural annotation	PF00589, MF_01808, TIGR02224, COG4974	NA	NA
UHGV-0019669_30	KOfam	K23779	sutR; XRE family transcriptional regulator, regulator of sulfur utilization	NA
UHGV-0019669_30	PHROG	phrog_5823	transcriptional regulator	transcription regulation
UHGV-0019669_30	UniRef90	UniRef90_A4EAV4	DNA-binding helix-turn-helix protein	NA
UHGV-0019669_30	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0019669_30	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0019669_30	Structural annotation	PF13443, NF041951, COG1396	NA	NA
UHGV-0019669_31	Structural annotation	PF12728, TIGR01764, COG3311	NA	NA
UHGV-0019669_32	KOfam	K01160	rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]	NA
UHGV-0019669_32	PHROG	phrog_140	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0019669_32	UniRef90	UniRef90_UPI0011061354	RusA family crossover junction endodeoxyribonuclease	NA
UHGV-0019669_32	eggNOG-mapper	521003.COLINT_02312	Endodeoxyribonuclease RusA	NA
UHGV-0019669_32	Pfam	PF05866	Endodeoxyribonuclease RusA	RusA
UHGV-0019669_32	COG	COG4570	Holliday junction resolvase RusA (prophage-encoded endonuclease)	NA
UHGV-0019669_32	Structural annotation	PF05866, NF007305, COG4570	NA	NA
UHGV-0019669_34	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0019669_34	UniRef90	UniRef90_UPI00110603B3	YqaJ viral recombinase family protein	NA
UHGV-0019669_34	eggNOG-mapper	1504822.CCNO01000015_gene597	YqaJ viral recombinase family	NA
UHGV-0019669_34	Pfam	PF09588	YqaJ-like viral recombinase domain	YqaJ
UHGV-0019669_34	NCBIFam	TIGR03033.1	putative phage-type endonuclease	NA
UHGV-0019669_34	COG	COG5377	Phage-related protein, predicted endonuclease	NA
UHGV-0019669_34	Structural annotation	PF09588, MF_03030, TIGR03033, COG5377	NA	NA
UHGV-0019669_35	KOfam	K07455	recT; recombination protein RecT	NA
UHGV-0019669_35	PHROG	phrog_148	RecT-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0019669_35	UniRef90	UniRef90_UPI0014858083	recombinase RecT	NA
UHGV-0019669_35	eggNOG-mapper	1504822.CCNO01000015_gene598	DNA synthesis involved in double-strand break repair via homologous recombination	NA
UHGV-0019669_35	Pfam	PF03837	RecT family	RecT
UHGV-0019669_35	NCBIFam	TIGR00616.1	recombinase, phage RecT family	NA
UHGV-0019669_35	COG	COG3723	Recombinational DNA repair protein RecT	NA
UHGV-0019669_35	Structural annotation	PF03837, NF007351, COG3723	NA	NA
UHGV-0019669_36	UniRef90	UniRef90_UPI0011067053	integration host factor	NA
UHGV-0019669_36	eggNOG-mapper	1504822.CCNO01000015_gene823	Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits	NA
UHGV-0019669_36	NCBIFam	NF041260.1	integration host factor, actinobacterial type	NA
UHGV-0019669_36	COG	COG0099	Ribosomal protein S13	NA
UHGV-0019669_36	Structural annotation	PF00416, MF_01315, NF041260, COG0099	NA	NA
UHGV-0019669_37	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0019669_37	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0019669_37	UniRef90	UniRef90_UPI0011074123	single-stranded DNA-binding protein	NA
UHGV-0019669_37	eggNOG-mapper	1034345.CAEM01000002_gene1212	Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism	NA
UHGV-0019669_37	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0019669_37	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0019669_37	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0019669_37	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0019669_37	Structural annotation	PF00436, MF_00984, NF005579, COG0629	NA	NA
UHGV-0019669_38	PHROG	phrog_353	toxin	moron, auxiliary metabolic gene and host takeover
UHGV-0019669_38	UniRef90	UniRef90_UPI0011069D09	type II toxin-antitoxin system HicA family toxin	NA
UHGV-0019669_38	Pfam	PF07927	HicA toxin of bacterial toxin-antitoxin,	HicA_toxin
UHGV-0019669_38	COG	COG1724	Predicted RNA binding protein YcfA, dsRBD-like fold, HicA-like mRNA interferase family	NA
UHGV-0019669_41	KOfam	K01520	dut, DUT; dUTP pyrophosphatase [EC:3.6.1.23]	NA
UHGV-0019669_41	PHROG	phrog_135	dUTPase	DNA, RNA and nucleotide metabolism
UHGV-0019669_41	UniRef90	UniRef90_UPI001E3E2DB2	dUTP diphosphatase	NA
UHGV-0019669_41	eggNOG-mapper	397291.C804_00898	dUTPase	NA
UHGV-0019669_41	Pfam	PF00692	dUTPase	dUTPase
UHGV-0019669_41	NCBIFam	NF001862.0	dUTP diphosphatase	NA
UHGV-0019669_41	COG	COG0756	dUTP pyrophosphatase (dUTPase)	NA
UHGV-0019669_41	Structural annotation	PF00692, MF_00116, NF001862, COG0756	NA	NA
UHGV-0019669_42	PHROG	phrog_236	nucleotide kinase	other
UHGV-0019669_42	UniRef90	UniRef90_UPI001BB234D3	NA	NA
UHGV-0019669_42	Pfam	PF11753	NA	DUF3310
UHGV-0019669_43	PHROG	phrog_8489	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0019669_43	UniRef90	UniRef90_UPI001105FF6B	replisome organizer	NA
UHGV-0019669_43	eggNOG-mapper	1414720.CBYM010000040_gene1625	DnaD domain protein	NA
UHGV-0019669_43	COG	COG3935	DNA replication protein DnaD	NA
UHGV-0019669_43	Structural annotation	PF09681, TIGR01714	NA	NA
UHGV-0019669_44	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0019669_44	PHROG	phrog_50	DnaC-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0019669_44	UniRef90	UniRef90_UPI00110588D4	ATP-binding protein	NA
UHGV-0019669_44	eggNOG-mapper	411483.FAEPRAA2165_00602	IstB-like ATP binding protein	NA
UHGV-0019669_44	Pfam	PF01695	IstB-like ATP binding protein	IstB_IS21
UHGV-0019669_44	COG	COG1484	DNA replication protein DnaC	NA
UHGV-0019669_44	Structural annotation	PF01695, PF06827, MF_00377, NF005992, COG1484	NA	NA
UHGV-0019669_45	Structural annotation	PF17399	NA	NA
UHGV-0019669_49	KOfam	K00558	DNMT1, dcm; DNA (cytosine-5)-methyltransferase 1 [EC:2.1.1.37]	NA
UHGV-0019669_49	PHROG	phrog_757	DNA methyltransferase	other
UHGV-0019669_49	UniRef90	UniRef90_A0A354HEP8	DNA (cytosine-5-)-methyltransferase	NA
UHGV-0019669_49	eggNOG-mapper	1384484.AEQU_0049	DNA (cytosine-5-)-methyltransferase activity	NA
UHGV-0019669_49	Pfam	PF00145	C-5 cytosine-specific DNA methylase	DNA_methylase
UHGV-0019669_49	COG	COG0270	DNA-cytosine methylase	NA
UHGV-0019669_50	PHROG	phrog_757	DNA methyltransferase	other
UHGV-0019669_50	UniRef90	UniRef90_A0A374LFG5	DNA (cytosine-5-)-methyltransferase	NA
UHGV-0019669_50	eggNOG-mapper	502558.EGYY_00600	DNA (cytosine-5-)-methyltransferase activity	NA
UHGV-0019669_50	COG	COG0270	DNA-cytosine methylase	NA
UHGV-0019669_51	KOfam	K19779	ralR; endodeoxyribonuclease RalR [EC:3.1.-.-]	NA
UHGV-0019669_51	PHROG	phrog_599	Lar-like restriction alleviation protein	moron, auxiliary metabolic gene and host takeover
UHGV-0019669_51	Pfam	PF14354	Restriction alleviation protein Lar	Lar_restr_allev
UHGV-0019669_51	dbAPIS	APIS033	Lar is functionally similar to RaI, is able to alleviate restriction and enhance modification by EcoKI. And the nucleotide sequences of their genes share 47% identity, indicating a common origin.	NA
UHGV-0019669_51	Structural annotation	PF14354, NF007260	NA	NA
UHGV-0019669_53	UniRef90	UniRef90_UPI001105C552	helix-turn-helix domain-containing protein	NA
UHGV-0019669_53	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0019669_53	COG	COG1476	DNA-binding transcriptional regulator, XRE-family HTH domain	NA
UHGV-0019669_54	PHROG	phrog_3392	NA	unknown function
UHGV-0019669_54	eggNOG-mapper	1217710.F969_00044	NA	NA
UHGV-0019669_55	PHROG	phrog_21525	NA	unknown function
UHGV-0019669_59	eggNOG-mapper	1125712.HMPREF1316_2378	NA	NA
UHGV-0019669_59	Structural annotation	PF04545, MF_00674, TIGR02984, COG2739	NA	NA
UHGV-0019669_60	UniRef90	UniRef90_UPI0018998A26	helix-turn-helix transcriptional regulator	NA
UHGV-0019669_60	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0019669_60	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0019669_66	eggNOG-mapper	1095770.CAHE01000085_gene1290	NA	NA
UHGV-0019669_68	UniRef90	UniRef90_UPI000C85B211	helix-turn-helix domain-containing protein	NA
UHGV-0019669_68	Structural annotation	PF12844, NF041951, COG1396	NA	NA
UHGV-0019669_69	PHROG	phrog_585	NA	unknown function
UHGV-0019669_69	UniRef90	UniRef90_A0A7C8FWK6	NA	NA
UHGV-0019669_69	eggNOG-mapper	1437610.BREU_1386	NA	NA
UHGV-0019669_69	Pfam	PF10711	NA	DUF2513
UHGV-0019669_69	Structural annotation	PF10711, TIGR03433, COG3355	NA	NA