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

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Minority Variants

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SNP Variants Table

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Annotated Variants Table

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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

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Region Bam File

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CDS Alignment

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Consensus Sequence

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Consensus Contigs

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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