UHGV-0004162

Genome information

Genome length 46,594 bps

CDS count 76

Completeness 78.26% (medium-quality)

geNomad score 0.9795

Prediction confidence Confident

Genome information
Genome ID	UHGV-0004162
vOTU ID	vOTU-035213
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_MoBio_hadza-A-D_D_14_1620__NODE_1293_length_56014_cov_13.193003_1
BioSample	SAMEA4765905
Country	Tanzania
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	78.26% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	20
CheckV host markers	2
Recoded stop codon	No

Viral signal
geNomad score	0.9795
Virus hallmark genes (geNomad)	9
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	27.52
Jumbo phage	No

Genome content
Genome length	46,594 bps
GC content	42.32%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	76
CDS density	87.64%
Average CDS length	539.49 bps
tRNA count	4
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0004162_4	PHROG	phrog_13890	NA	unknown function
UHGV-0004162_4	eggNOG-mapper	658655.HMPREF0988_00903	NA	NA
UHGV-0004162_4	Structural annotation	PF03869, NF010256, COG4710	NA	NA
UHGV-0004162_5	Structural annotation	PF16677	NA	NA
UHGV-0004162_11	eggNOG-mapper	1235793.C809_02217	NA	NA
UHGV-0004162_12	PHROG	phrog_478	site-specific recombination directionality factor RDF	integration and excision
UHGV-0004162_12	UniRef90	UniRef90_A0A285PT53	Prokaryotic membrane lipoprotein lipid attachment site profile	NA
UHGV-0004162_12	eggNOG-mapper	397290.C810_00409	NA	NA
UHGV-0004162_16	Pfam	PF10122	NA	Mu-like_Com
UHGV-0004162_16	Structural annotation	PF10122, COG4416	NA	NA
UHGV-0004162_17	Structural annotation	PF10694	NA	NA
UHGV-0004162_18	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0004162_18	UniRef90	UniRef90_A0A318EQM2	Putative phage terminase large subunit-like protein	NA
UHGV-0004162_18	eggNOG-mapper	1123263.AUKY01000015_gene1608	chromosome segregation	NA
UHGV-0004162_18	NCBIFam	TIGR01630.1	phage terminase large subunit	NA
UHGV-0004162_18	COG	COG5410	NA	NA
UHGV-0004162_18	Structural annotation	PF17289, PF02562, MF_04147, NF033889, COG5362, COG5410	NA	NA
UHGV-0004162_19	PHROG	phrog_11237	NA	unknown function
UHGV-0004162_19	eggNOG-mapper	476272.RUMHYD_01941	NA	NA
UHGV-0004162_20	PHROG	phrog_64	portal protein	head and packaging
UHGV-0004162_20	UniRef90	UniRef90_A0A318EK76	SPP1 family phage portal protein	NA
UHGV-0004162_20	eggNOG-mapper	476272.RUMHYD_01943	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0004162_20	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0004162_20	Structural annotation	PF05133, MF_04120, TIGR01538, COG5511	NA	NA
UHGV-0004162_21	Structural annotation	PF14265	NA	NA
UHGV-0004162_22	PHROG	phrog_544	major head protein	head and packaging
UHGV-0004162_22	UniRef90	UniRef90_A0A3R6TIZ8	N4-gp56 family major capsid protein	NA
UHGV-0004162_22	eggNOG-mapper	608534.GCWU000341_02293	NA	NA
UHGV-0004162_22	NCBIFam	TIGR04387.1	N4-gp56 family major capsid protein	NA
UHGV-0004162_22	Structural annotation	PF05065, MF_04119, TIGR04387, COG4653	NA	NA
UHGV-0004162_23	Structural annotation	PF21169	NA	NA
UHGV-0004162_24	eggNOG-mapper	397290.C810_01402	NA	NA
UHGV-0004162_24	Pfam	PF05135	Phage gp6-like head-tail connector protein	Phage_connect_1
UHGV-0004162_27	eggNOG-mapper	1298920.KI911353_gene2656	NA	NA
UHGV-0004162_27	Structural annotation	PF07405, TIGR01563, COG5614	NA	NA
UHGV-0004162_28	PHROG	phrog_1233	NA	unknown function
UHGV-0004162_28	UniRef90	UniRef90_UPI001C39EFB9	Dienelactone hydrolase family protein	NA
UHGV-0004162_28	eggNOG-mapper	476272.RUMHYD_01960	NA	NA
UHGV-0004162_29	UniRef90	UniRef90_A0A7C7ERK4	HK97 gp10 family phage protein	NA
UHGV-0004162_29	eggNOG-mapper	1232453.BAIF02000058_gene1631	NA	NA
UHGV-0004162_29	AcrCatalog	cluster_24841	NA	NA
UHGV-0004162_29	Structural annotation	PF17395, TIGR01725	NA	NA
UHGV-0004162_30	PHROG	phrog_419	NA	unknown function
UHGV-0004162_30	UniRef90	UniRef90_D7RWI0	Gp56	NA
UHGV-0004162_30	eggNOG-mapper	33035.JPJF01000093_gene2254	NA	NA
UHGV-0004162_30	Structural annotation	PF14083	NA	NA
UHGV-0004162_31	Structural annotation	PF05657	NA	NA
UHGV-0004162_32	eggNOG-mapper	476272.RUMHYD_01968	NA	NA
UHGV-0004162_32	Structural annotation	PF16463, TIGR02241, COG5437	NA	NA
UHGV-0004162_35	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0004162_35	UniRef90	UniRef90_A0A1I0JNI7	Phage-related protein	NA
UHGV-0004162_35	eggNOG-mapper	1298920.KI911353_gene2649	tape measure	NA
UHGV-0004162_35	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-0004162_38	KOfam	K22300	dicA; HTH-type transcriptional regulator, cell division transcriptional repressor	NA
UHGV-0004162_38	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0004162_38	UniRef90	UniRef90_A0A3A8W290	XRE family transcriptional regulator	NA
UHGV-0004162_38	eggNOG-mapper	697303.Thewi_2448	Helix-turn-helix XRE-family like proteins	NA
UHGV-0004162_38	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0004162_38	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0004162_38	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0004162_38	Structural annotation	PF12844, NF041951, COG1476	NA	NA
UHGV-0004162_39	UniRef90	UniRef90_A0A3A8W1P2	Toxin-antitoxin system HicB family antitoxin	NA
UHGV-0004162_39	Structural annotation	PF07878, NF010256, COG4691	NA	NA
UHGV-0004162_40	PHROG	phrog_373	anti-repressor	transcription regulation
UHGV-0004162_40	UniRef90	UniRef90_A0A6N2TXK2	Phage regulatory protein Rha (Phage_pRha)	NA
UHGV-0004162_40	eggNOG-mapper	397290.C810_01445	Phage regulatory protein Rha (Phage_pRha)	NA
UHGV-0004162_40	Pfam	PF09669	Phage regulatory protein Rha (Phage_pRha)	Phage_pRha
UHGV-0004162_40	NCBIFam	TIGR02681.1	phage regulatory protein, Rha family	NA
UHGV-0004162_40	COG	COG3617	Prophage antirepressor	NA
UHGV-0004162_40	Structural annotation	PF09669, TIGR02681, COG3646	NA	NA
UHGV-0004162_42	PHROG	phrog_2657	transcriptional regulator	transcription regulation
UHGV-0004162_42	UniRef90	UniRef90_UPI001E12B23B	Rha family transcriptional regulator	NA
UHGV-0004162_42	eggNOG-mapper	33035.JPJF01000043_gene993	NA	NA
UHGV-0004162_42	Pfam	PF09669	Phage regulatory protein Rha (Phage_pRha)	Phage_pRha
UHGV-0004162_42	NCBIFam	TIGR02681.1	phage regulatory protein, Rha family	NA
UHGV-0004162_42	COG	COG3646	Phage regulatory protein Rha	NA
UHGV-0004162_42	Structural annotation	PF09669, TIGR02681, COG3646	NA	NA
UHGV-0004162_43	PHROG	phrog_1194	NA	unknown function
UHGV-0004162_43	eggNOG-mapper	483218.BACPEC_01144	NA	NA
UHGV-0004162_43	Pfam	PF20458	NA	DUF6711
UHGV-0004162_43	Structural annotation	PF20458, TIGR01633, COG3499	NA	NA
UHGV-0004162_44	PHROG	phrog_18190	NA	unknown function
UHGV-0004162_44	UniRef90	UniRef90_UPI001C01E293	tail fiber domain-containing protein	NA
UHGV-0004162_44	eggNOG-mapper	1235790.C805_00089	NA	NA
UHGV-0004162_44	Structural annotation	PF05113, NF033848, COG3500	NA	NA
UHGV-0004162_45	PHROG	phrog_18444	NA	unknown function
UHGV-0004162_45	eggNOG-mapper	931276.Cspa_c07570	NA	NA
UHGV-0004162_46	PHROG	phrog_17196	kinase	other
UHGV-0004162_46	eggNOG-mapper	397290.C810_05240	NA	NA
UHGV-0004162_46	Structural annotation	PF19537, PF13619, COG3536	NA	NA
UHGV-0004162_47	PHROG	phrog_25620	tail collar fiber protein	tail
UHGV-0004162_47	UniRef90	UniRef90_UPI00164A2069	phage tail protein	NA
UHGV-0004162_47	eggNOG-mapper	33035.JPJF01000033_gene2261	tail collar domain protein	NA
UHGV-0004162_47	COG	COG4675	Phage tail collar domain	NA
UHGV-0004162_49	Pfam	PF09693	Phage uncharacterised protein (Phage_XkdX)	Phage_XkdX
UHGV-0004162_49	Structural annotation	PF09693, TIGR01669	NA	NA
UHGV-0004162_50	UniRef90	UniRef90_UPI0013C7D128	hemolysin XhlA family protein	NA
UHGV-0004162_50	eggNOG-mapper	1345695.CLSA_c29710	Haemolysin XhlA	NA
UHGV-0004162_50	Pfam	PF10779	Haemolysin XhlA	XhlA
UHGV-0004162_51	PHROG	phrog_443	holin	lysis
UHGV-0004162_51	UniRef90	UniRef90_UPI001570A68C	holin	NA
UHGV-0004162_51	eggNOG-mapper	742733.HMPREF9469_01797	Putative lactococcus lactis phage r1t holin	NA
UHGV-0004162_51	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-0004162_51	Structural annotation	PF16945	NA	NA
UHGV-0004162_52	KOfam	K01185	E3.2.1.17; lysozyme [EC:3.2.1.17]	NA
UHGV-0004162_52	PHROG	phrog_7	endolysin	lysis
UHGV-0004162_52	UniRef90	UniRef90_UPI001F2A030E	lysozyme	NA
UHGV-0004162_52	eggNOG-mapper	693746.OBV_20240	Phage lysozyme	NA
UHGV-0004162_52	Pfam	PF00959	Phage lysozyme	Phage_lysozyme
UHGV-0004162_52	COG	COG3772	Phage-related lysozyme (muramidase), GH24 family	NA
UHGV-0004162_52	HAMAP	MF_04110	Endolysin	NA
UHGV-0004162_52	Structural annotation	PF00959, PF18342, MF_04110, COG3772, COG4991	NA	NA
UHGV-0004162_53	KOfam	K23779	sutR; XRE family transcriptional regulator, regulator of sulfur utilization	NA
UHGV-0004162_53	PHROG	phrog_3	transcriptional repressor	transcription regulation
UHGV-0004162_53	UniRef90	UniRef90_R7QUM8	DNA-binding helix-turn-helix protein	NA
UHGV-0004162_53	eggNOG-mapper	411470.RUMGNA_00189	Cro/C1-type HTH DNA-binding domain	NA
UHGV-0004162_53	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0004162_53	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0004162_53	Structural annotation	PF01381, NF041951, COG1476	NA	NA
UHGV-0004162_55	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0004162_55	UniRef90	UniRef90_A0A1Q9J746	HTH cro/C1-type domain-containing protein	NA
UHGV-0004162_55	eggNOG-mapper	1536772.R70723_06535	addiction module antidote protein HigA	NA
UHGV-0004162_55	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0004162_55	COG	COG3093	Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain	NA
UHGV-0004162_55	Structural annotation	PF12844, NF041951, COG1476	NA	NA
UHGV-0004162_56	UniRef90	UniRef90_UPI0015934173	helix-turn-helix domain-containing protein	NA
UHGV-0004162_56	eggNOG-mapper	585394.RHOM_13510	sequence-specific DNA binding	NA
UHGV-0004162_56	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0004162_56	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0004162_56	Structural annotation	PF01381, NF041951, COG3655	NA	NA
UHGV-0004162_58	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0004162_58	PHROG	phrog_373	anti-repressor	transcription regulation
UHGV-0004162_58	UniRef90	UniRef90_A0A292SST5	AntA domain-containing protein	NA
UHGV-0004162_58	eggNOG-mapper	397290.C810_01343	AntA/AntB antirepressor	NA
UHGV-0004162_58	Pfam	PF08346	AntA/AntB antirepressor	AntA
UHGV-0004162_58	COG	COG3561	Phage anti-repressor protein Ant	NA
UHGV-0004162_58	Structural annotation	PF08346, TIGR02681, COG3561	NA	NA
UHGV-0004162_60	KOfam	K07699	spo0A; two-component system, response regulator, stage 0 sporulation protein A	NA
UHGV-0004162_60	PHROG	phrog_37855	NA	unknown function
UHGV-0004162_60	UniRef90	UniRef90_A0A1Q6KA48	Spo0A_C domain-containing protein	NA
UHGV-0004162_60	eggNOG-mapper	1123075.AUDP01000008_gene1706	May play the central regulatory role in sporulation. It may be an element of the effector pathway responsible for the activation of sporulation genes in response to nutritional stress. Spo0A may act in concert with spo0H (a sigma factor) to control the expression of some genes that are critical to the sporulation process	NA
UHGV-0004162_60	Pfam	PF08769	Sporulation initiation factor Spo0A C terminal	Spo0A_C
UHGV-0004162_60	COG	COG2201	Chemotaxis response regulator CheB, contains REC and protein-glutamate methylesterase domains	NA
UHGV-0004162_60	Structural annotation	PF08769, TIGR02875	NA	NA
UHGV-0004162_62	KOfam	K08309	slt; soluble lytic murein transglycosylase [EC:4.2.2.-]	NA
UHGV-0004162_62	PHROG	phrog_19890	NA	unknown function
UHGV-0004162_62	UniRef90	UniRef90_A0A3A9GZ37	SLT domain-containing protein	NA
UHGV-0004162_62	eggNOG-mapper	1410650.JHWL01000003_gene2854	lytic transglycosylase activity	NA
UHGV-0004162_62	Pfam	PF01464	Transglycosylase SLT domain	SLT
UHGV-0004162_62	COG	COG0741	Soluble lytic murein transglycosylase or regulatory protein s ( may contain LysM/invasin domain)	NA
UHGV-0004162_62	Structural annotation	PF01464, MF_01381, NF011856, COG0741	NA	NA
UHGV-0004162_63	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0004162_63	PHROG	phrog_26861	NA	unknown function
UHGV-0004162_63	UniRef90	UniRef90_A0A354D461	Single-stranded DNA-binding protein	NA
UHGV-0004162_63	eggNOG-mapper	622312.ROSEINA2194_00317	PFAM single-strand binding protein Primosomal replication protein n	NA
UHGV-0004162_63	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0004162_63	NCBIFam	NF004476.0	single-stranded DNA-binding protein	NA
UHGV-0004162_63	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0004162_63	Structural annotation	PF00436, PF13567, MF_00984, NF004476, COG0629	NA	NA
UHGV-0004162_64	KOfam	K19171	dndD; DNA sulfur modification protein DndD	NA
UHGV-0004162_64	PHROG	phrog_77	SbcC-like subunit of palindrome specific endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0004162_64	UniRef90	UniRef90_A0A1Q9J750	AAA_15 domain-containing protein	NA
UHGV-0004162_64	eggNOG-mapper	1294142.CINTURNW_1008	nuclear chromosome segregation	NA
UHGV-0004162_64	COG	COG1196	Chromosome segregation ATPase Smc	NA
UHGV-0004162_64	Structural annotation	PF02463, MF_00449, NF041034, COG0419	NA	NA
UHGV-0004162_66	eggNOG-mapper	1232453.BAIF02000057_gene1135	NA	NA
UHGV-0004162_67	PHROG	phrog_561	RecT-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0004162_67	UniRef90	UniRef90_UPI001904C527	recombinase RecT	NA
UHGV-0004162_67	eggNOG-mapper	537013.CLOSTMETH_01715	NA	NA
UHGV-0004162_67	Pfam	PF03837	RecT family	RecT
UHGV-0004162_67	Structural annotation	NF007351, COG3723	NA	NA
UHGV-0004162_69	PHROG	phrog_25456	NA	unknown function
UHGV-0004162_70	PHROG	phrog_15480	methyltransferase	other
UHGV-0004162_70	UniRef90	UniRef90_A0A1C5WPJ5	Spermidine synthase	NA
UHGV-0004162_70	eggNOG-mapper	1232447.BAHW02000015_gene1049	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine	NA
UHGV-0004162_70	COG	COG4262	Predicted spermidine synthase with an N-terminal membrane domain	NA
UHGV-0004162_70	Structural annotation	PF05401, MF_02100, NF041650, COG2813	NA	NA
UHGV-0004162_71	KOfam	K06167	phnP; phosphoribosyl 1,2-cyclic phosphate phosphodiesterase [EC:3.1.4.55]	NA
UHGV-0004162_71	PHROG	phrog_392	metal-dependent hydrolase	other
UHGV-0004162_71	UniRef90	UniRef90_A0A1Q6KA45	Lactamase_B domain-containing protein	NA
UHGV-0004162_71	eggNOG-mapper	411154.GFO_2483	Metallo-beta-lactamase superfamily	NA
UHGV-0004162_71	Pfam	PF00753	Metallo-beta-lactamase superfamily	Lactamase_B
UHGV-0004162_71	dbAPIS	APIS058	NA	NA
UHGV-0004162_71	COG	COG1235	Phosphoribosyl 1,2-cyclic phosphate phosphodiesterase	NA
UHGV-0004162_71	Structural annotation	PF02112, MF_00457, NF041851, COG2220	NA	NA
UHGV-0004162_72	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0004162_72	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0004162_72	UniRef90	UniRef90_A0A1Q6KA57	Single-stranded DNA-binding protein	NA
UHGV-0004162_72	eggNOG-mapper	742723.HMPREF9477_01387	Single-strand binding protein family	NA
UHGV-0004162_72	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0004162_72	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0004162_72	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0004162_72	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0004162_72	Structural annotation	PF00436, MF_00984, NF005242, COG0629	NA	NA
UHGV-0004162_74	PHROG	phrog_3490	ERCC4-type nuclease	DNA, RNA and nucleotide metabolism
UHGV-0004162_74	UniRef90	UniRef90_A0A1Q9J756	ERCC4 domain-containing protein	NA
UHGV-0004162_74	eggNOG-mapper	1232453.BAIF02000057_gene1143	NA	NA
UHGV-0004162_74	Pfam	PF02732	ERCC4 domain	ERCC4
UHGV-0004162_74	Structural annotation	PF02732, NF040956, COG1948	NA	NA
UHGV-0004162_75	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0004162_75	PHROG	phrog_5968	replisome organizer	DNA, RNA and nucleotide metabolism
UHGV-0004162_75	UniRef90	UniRef90_A0A413Z5U5	Phage_rep_org_N domain-containing protein	NA
UHGV-0004162_75	eggNOG-mapper	1118057.CAGX01000006_gene420	Phage replisome organizer N-terminal domain protein	NA
UHGV-0004162_75	Pfam	PF09681	N-terminal phage replisome organiser (Phage_rep_org_N)	Phage_rep_org_N
UHGV-0004162_75	NCBIFam	TIGR01714.1	phage replisome organizer, putative, N-terminal region	NA
UHGV-0004162_75	Structural annotation	PF09681, TIGR01714, COG0640	NA	NA