Genome Detective

NGS Details (SRR3458562_Metagenome_example): Bracoviriform glomeratae

Assembly

Coverage Length

122 (1 contig(s))

Depth Of Coverage

3.8

Number Of Reads

Reads Per Million

0.26 rpm (after QC)

Ambiguities

Assembly Method

de novo + reference guided assembly

Consensus Caller

Bcf Tools

Coverage Map

Map

Variant Tables

Consensus Variants

Download consensus variants (vcf)

Minority Variants

Download minority variants (vcf)

SNP Variants Table

Download SNP mutations table (csv)

Annotated Variants Table

Download annotated variants table (csv)

Assignment

Type

Bracoviriform glomeratae (Taxonomy ID: 257816)

Reference Genome

NC_043292.1

NT Identity (%)

74.5902

AA Identity (%)

85.3659

Number Of Stop Codons

Number Of CDS

Alignment

Alignment Score

124.0 (NT) + 193.0 (AA) = 317.0

Concordance (%)

63.0219

Alignment Method

Global, seeded, nucleotide + amino acids (AGA)

NT Alignment

Download alignment (FASTA)

Region Bam File

Download BAM file (.bam)

CDS Alignment

Download CDS alignment (FASTA)

Consensus Sequence

Download consensus sequence (FASTA) (Including IUPAC ambiguity codes)

Consensus Contigs

Download consensus contigs (FASTA)

Genome Region

Sequence starts at position 156 and ends at position 277 relative to NC_043292.1 reference sequence.

NC_043292.1

SRR3458562_Metagenome_example-NC_043292.1-121-0

NC_043292.1

SRR3458562_Metagenome_example-NC_043292.1-121-0

ATGGCTGATCATCCTAAAGGTGCTGAAGAAGTCAAAGGATCGGCCAAAGCAGAAAAAGGATTGGGCAAAGAAGGAAAAGGATTGGGCAAAGGAGCGAAAGGATTGGGCAAAGAAGGAAGAGGATTGGGCAAAGGAACGAAGGGATTGGGAAAAGCGGGCGCCAAGCGTTATCGCAAAGTTCTTCGAGATAACATCCAAGGAATCACCAAGCCAACTATCCGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTATCTCTGGATTAGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCGAGAACGTTATCCGTGATGCTGTCATCTATACCGAACACGCAAAACGTAAGACTGTCACCGCCATGGATGTCGTCTATGCATTGAAACATAAAGGCCGTATGATCTATGGTTATGGAGGTTAA

...........................................................................................................................................................GGGCGCTAAGCGCCACCGCMAGGTGCTGCGGGACWACATCCAGGGCATCACCAAGCCCGCCATCCGGCGCCTGGCCCGGCGCGGCGGCGTCAAGCGCATCTCCGGCCTCATCTACGAGGAGA.....................................................................................................................................................

100

200

300

400

FK954_p501

MADHPKGAEEVKGSAKAEKGLGKEGKGLGKGAKGLGKEGRGLGKGTKGLGKAGAKRYRKVLRDNIQGITKPTIRRLARRGGVKRISGLVYEEIRDVLKIFLENVIRDAVIYTEHAKRKTVTAMDVVYALKHKGRMIYGYGG*

...................................................XGAKRHRXVLRDXIQGITKPAIRRLARRGGVKRISGLIYEEX.................................................

Alignment Detailed Statistics


	Begin	End	Coverage	Score	Concordance	Matches	Identities	I/D/M/F^*	Stop Codons
NT	156	277	28.6%	124	50.8%	122 (100%)	91 (74.6%)	0/0
Mutations:	162C>T, 168T>C, 169T>C, 171T>C, 175A>M, 177A>G, 180T>G, 183T>G, 186A>G, 189T>C, 190A>W, 198A>G, 201A>C, 213A>C, 214A>G, 216T>C, 222T>G, 225T>C, 231T>C, 234T>G, 237T>C, 240T>C, 243A>C, 252T>C, 258T>C, 261A>C, 262T>C, 264A>C, 265G>A, 270T>C, 273A>G
CDS

FK954_p501	53	93	28.9%	193	71.7%	41 (100%)	35 (85.4%)	0/0/2/0	0
Protein mutations:	Y57H (169T>C 171T>C), T72A (214A>G 216T>C), V89I (265G>A)
Codon mutations:	GCC54GCT (162C>T), CGT56CGC (168T>C), TAT57CAC (169T>C 171T>C), AAA59MAG (175A>M 177A>G), GTT60GTG (180T>G), CTT61CTG (183T>G), CGA62CGG (186A>G), GAT63GAC (189T>C), AAC64WAC (190A>W), CAA66CAG (198A>G), GGA67GGC (201A>C), CCA71CCC (213A>C), ACT72GCC (214A>G 216T>C), CGT74CGG (222T>G), CGT75CGC (225T>C), GCT77GCC (231T>C), CGT78CGG (234T>G), CGT79CGC (237T>C), GGT80GGC (240T>C), GGA81GGC (243A>C), CGT84CGC (252T>C), TCT86TCC (258T>C), GGA87GGC (261A>C), TTA88CTC (262T>C 264A>C), GTC89ATC (265G>A), TAT90TAC (270T>C), GAA91GAG (273A>G)
Proteins

putative histone 4 (YP_009665791.1)	53	93	28.9%	193	71.7%	41 (100%)	35 (85.4%)	0/0/2/0	0
Protein mutations:	Y57H (169T>C 171T>C), T72A (214A>G 216T>C), V89I (265G>A)
Codon mutations:	GCC54GCT (162C>T), CGT56CGC (168T>C), TAT57CAC (169T>C 171T>C), AAA59MAG (175A>M 177A>G), GTT60GTG (180T>G), CTT61CTG (183T>G), CGA62CGG (186A>G), GAT63GAC (189T>C), AAC64WAC (190A>W), CAA66CAG (198A>G), GGA67GGC (201A>C), CCA71CCC (213A>C), ACT72GCC (214A>G 216T>C), CGT74CGG (222T>G), CGT75CGC (225T>C), GCT77GCC (231T>C), CGT78CGG (234T>G), CGT79CGC (237T>C), GGT80GGC (240T>C), GGA81GGC (243A>C), CGT84CGC (252T>C), TCT86TCC (258T>C), GGA87GGC (261A>C), TTA88CTC (262T>C 264A>C), GTC89ATC (265G>A), TAT90TAC (270T>C), GAA91GAG (273A>G)

^*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43