Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Enterobacteria phage ST104

Assembly

1326 (4 contig(s))
23.2
287
18.52 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Enterobacteria phage ST104 (Taxonomy ID: 221029)
88.0
88.3408
2
62

Alignment

1995.0 (NT) + 2492.0 (AA) = 4487.0
81.5879
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT4765361983.2%199575.7%1324 (99.8%)1166 (87.9%)1/2
Mutations:
4832_4833delGC 4874C>G 4967G>A 5070G>A 5101T>G 5106T>G 5112T>C 5120_5121insT 5148C>A 5222G>T 5226G>T 5261G>A 5263T>A 5270C>A 5273C>A 5285T>C 5288C>T 5297C>A 5423T>A 5428C>G 5429G>A 5430T>G 5431T>C 5432T>G 5472G>A 5481C>T 5489T>C 5519G>A 5537C>T 5540T>A 5549T>C 5551T>C 5555T>A 5561A>C 5569A>C 5579A>C 5588A>T 5597A>T 5660T>C 5669A>G 17871C>T 35792G>C 35795A>G 35798T>C 35799T>A 35804G>T 35807C>A 35810G>T 35813G>T 35819G>T 35825A>T 35828C>T 35829C>A 35830G>A 35831T>A 35840G>A 35849T>C 35852T>C 35853T>C 35858G>T 35864A>G 35873A>G 35875A>C 35876T>A 35891T>A 35894C>T 35895A>C 35897G>T 35900G>T 35906A>T 35909T>C 35915A>G 35928T>C 35930A>G 35936C>T 35939G>C 35940C>A 35942T>A 35945T>G 35948T>A 35950A>C 35951T>G 35954C>T 35955A>G 35956A>G 35958G>A 35960C>G 35966G>T 35969T>C 35972A>C 35973T>G 35978C>T 35983G>A 35987A>G 35990T>C 35999T>A 36001C>T 36002T>A 36006G>A 36008T>C 36009A>G 36011C>G 36014A>C 36021G>A 36026T>C 36032G>C 36035A>C 36039G>T 36047A>T 36050A>T 36053T>G 36054C>G 36056A>T 36059G>A 36062T>G 36065G>A 36068A>T 36070G>A 36071C>T 36080C>T 36085C>A 36086G>A 36099A>C 36101C>T 36110C>T 36111G>T 36113A>T 36114A>G 36115A>G 36120G>T 36121A>C 36122T>A 36123G>A 36124C>T 36126T>G 36127C>A 36128T>C 36130C>A 36134C>T 36136A>G 36137T>C 36146T>A 36149A>T 36152G>T 36155T>A 36158C>T 36159G>T 36160G>C 36161A>T 36162G>T 36167A>T 36168A>T 36169A>C 36171C>T 36172C>T 36173G>T 36176A>T 36177A>C 36189G>A 36194C>T
CDS
17680.0%41374.1%76 (100%)74 (97.4%)0/0/1/10
195100%53176.4%95 (99.0%)90 (93.8%)1/0/1/11
Protein mutations:
D2V (5263T>A) P3S (5261G>A) L16I (5222G>T) K40N (5148C>A) N49_K50insX (5120_5121insT) D56A (5101T>G)
Codon mutations:
GAC2GTC (5263T>A) CCC3TCC (5261G>A) GCC14GCA (5226G>T) CTT16ATT (5222G>T) AAG40AAT (5148C>A) AAT49_AAA50insA-- (5120_5121insT) GCA52GCG (5112T>C) GCA54GCC (5106T>G) GAT56GCT (5101T>G) AGC66AGT (5070G>A)
12826438.6%64590.1%102 (100%)92 (90.2%)0/0/0/01
Protein mutations:
D154E (5597A>T) F164V (5569A>C) K170E (5549T>C 5551T>C) S193N (5481C>T) A196V (5472G>A) N210A (5429G>A 5430T>G 5431T>C) E211Q (5428C>G) E212D (5423T>A) K263N (5270C>A)
Codon mutations:
ACT130ACC (5669A>G) GCA133GCG (5660T>C) GAT154GAA (5597A>T) CTT157CTA (5588A>T) GGT160GGG (5579A>C) TTT164GTT (5569A>C) CTT166CTG (5561A>C) GCA168GCT (5555T>A) AAA170GAG (5549T>C 5551T>C) ATA173ATT (5540T>A) GCG174GCA (5537C>T) CCC180CCT (5519G>A) CTA190CTG (5489T>C) AGC193AAC (5481C>T) GCA196GTA (5472G>A) CCA209CCC (5432T>G) AAC210GCT (5429G>A 5430T>G 5431T>C) GAA211CAA (5428C>G) GAA212GAT (5423T>A) CCG254CCT (5297C>A) GAG257GAA (5288C>T) CCA258CCG (5285T>C) GTG262GTT (5273C>A) AAG263AAT (5270C>A)
8712023.3%19487.4%34 (100%)32 (94.1%)0/0/0/00
Protein mutations:
P87L (17871C>T)
Codon mutations:
CCT87CTT (17871C>T)
23136828.8%70977.9%138 (100%)106 (76.8%)0/0/0/00
Protein mutations:
S235T (35799T>A) R245K (35829C>A 35830G>A 35831T>A) N260T (35875A>C 35876T>A) N285T (35950A>C 35951T>G) N287G (35955A>G 35956A>G) G288R (35958G>A 35960C>G) S293A (35973T>G) S296N (35983G>A) T302I (36001C>T 36002T>A) D304N (36006G>A 36008T>C) N305E (36009A>G 36011C>G) V309I (36021G>A) A315S (36039G>T) P320A (36054C>G 36056A>T) S325N (36070G>A 36071C>T) A330E (36085C>A 36086G>A) I335L (36099A>C 36101C>T) A339S (36111G>T 36113A>T) N340G (36114A>G 36115A>G) D342S (36120G>T 36121A>C 36122T>A) A343I (36123G>A 36124C>T) S344D (36126T>G 36127C>A 36128T>C) A345D (36130C>A) D347G (36136A>G 36137T>C) M352I (36152G>T) G355S (36159G>T 36160G>C 36161A>T) A356S (36162G>T) N358S (36168A>T 36169A>C) P359F (36171C>T 36172C>T 36173G>T) I361L (36177A>C) V365I (36189G>A)
Codon mutations:
TCG232TCC (35792G>C) CTA233CTG (35795A>G) CGT234CGC (35798T>C) TCT235ACT (35799T>A) GCG236GCT (35804G>T) GGC237GGA (35807C>A) GGG238GGT (35810G>T) GCG239GCT (35813G>T) CCG241CCT (35819G>T) TCA243TCT (35825A>T) GTC244GTT (35828C>T) CGT245AAA (35829C>A 35830G>A 35831T>A) CAG248CAA (35840G>A) AAT251AAC (35849T>C) AGT252AGC (35852T>C) TTG253CTG (35853T>C) TCG254TCT (35858G>T) GAA256GAG (35864A>G) AAA259AAG (35873A>G) AAT260ACA (35875A>C 35876T>A) CGT265CGA (35891T>A) GGC266GGT (35894C>T) AGG267CGT (35895A>C 35897G>T) CCG268CCT (35900G>T) GCA270GCT (35906A>T) GGT271GGC (35909T>C) GAA273GAG (35915A>G) TTA278CTG (35928T>C 35930A>G) GAC280GAT (35936C>T) GGG281GGC (35939G>C) CGT282AGA (35940C>A 35942T>A) ACT283ACG (35945T>G) GTT284GTA (35948T>A) AAT285ACG (35950A>C 35951T>G) GTC286GTT (35954C>T) AAT287GGT (35955A>G 35956A>G) GGC288AGG (35958G>A 35960C>G) CTG290CTT (35966G>T) CAT291CAC (35969T>C) GGA292GGC (35972A>C) TCT293GCT (35973T>G) GGC294GGT (35978C>T) AGT296AAT (35983G>A) GCA297GCG (35987A>G) TTT298TTC (35990T>C) GGT301GGA (35999T>A) ACT302ATA (36001C>T 36002T>A) GAT304AAC (36006G>A 36008T>C) AAC305GAG (36009A>G 36011C>G) GGA306GGC (36014A>C) GTT309ATT (36021G>A) CGT310CGC (36026T>C) CCG312CCC (36032G>C) GCA313GCC (36035A>C) GCT315TCT (36039G>T) GCA317GCT (36047A>T) GCA318GCT (36050A>T) CCT319CCG (36053T>G) CCA320GCT (36054C>G 36056A>T) ACG321ACA (36059G>A) TCT322TCG (36062T>G) GCG323GCA (36065G>A) GCA324GCT (36068A>T) AGC325AAT (36070G>A 36071C>T) AAC328AAT (36080C>T) GCG330GAA (36085C>A 36086G>A) ATC335CTT (36099A>C 36101C>T) ATC338ATT (36110C>T) GCA339TCT (36111G>T 36113A>T) AAC340GGC (36114A>G 36115A>G) GAT342TCA (36120G>T 36121A>C 36122T>A) GCT343ATT (36123G>A 36124C>T) TCT344GAC (36126T>G 36127C>A 36128T>C) GCT345GAT (36130C>A) CTC346CTT (36134C>T) GAT347GGC (36136A>G 36137T>C) ACT350ACA (36146T>A) GGA351GGT (36149A>T) ATG352ATT (36152G>T) ACT353ACA (36155T>A) GGC354GGT (36158C>T) GGA355TCT (36159G>T 36160G>C 36161A>T) GCA356TCA (36162G>T) GGA357GGT (36167A>T) AAT358TCT (36168A>T 36169A>C) CCG359TTT (36171C>T 36172C>T 36173G>T) GCA360GCT (36176A>T) ATT361CTT (36177A>C) GTT365ATT (36189G>A) CGC366CGT (36194C>T)
Proteins
17680.0%41374.1%76 (100%)74 (97.4%)0/0/1/10
Protein mutations:none
Codon mutations:
GTC8GTT (4967G>A) CGG39CGC (4874C>G) CGC53C-- (4832_4833delGC)
195100%53176.4%95 (99.0%)90 (93.8%)1/0/1/11
Protein mutations:
D2V (5263T>A) P3S (5261G>A) L16I (5222G>T) K40N (5148C>A) N49_K50insX (5120_5121insT) D56A (5101T>G)
Codon mutations:
GAC2GTC (5263T>A) CCC3TCC (5261G>A) GCC14GCA (5226G>T) CTT16ATT (5222G>T) AAG40AAT (5148C>A) AAT49_AAA50insA-- (5120_5121insT) GCA52GCG (5112T>C) GCA54GCC (5106T>G) GAT56GCT (5101T>G) AGC66AGT (5070G>A)
12826438.6%64590.1%102 (100%)92 (90.2%)0/0/0/01
Protein mutations:
D154E (5597A>T) F164V (5569A>C) K170E (5549T>C 5551T>C) S193N (5481C>T) A196V (5472G>A) N210A (5429G>A 5430T>G 5431T>C) E211Q (5428C>G) E212D (5423T>A) K263N (5270C>A)
Codon mutations:
ACT130ACC (5669A>G) GCA133GCG (5660T>C) GAT154GAA (5597A>T) CTT157CTA (5588A>T) GGT160GGG (5579A>C) TTT164GTT (5569A>C) CTT166CTG (5561A>C) GCA168GCT (5555T>A) AAA170GAG (5549T>C 5551T>C) ATA173ATT (5540T>A) GCG174GCA (5537C>T) CCC180CCT (5519G>A) CTA190CTG (5489T>C) AGC193AAC (5481C>T) GCA196GTA (5472G>A) CCA209CCC (5432T>G) AAC210GCT (5429G>A 5430T>G 5431T>C) GAA211CAA (5428C>G) GAA212GAT (5423T>A) CCG254CCT (5297C>A) GAG257GAA (5288C>T) CCA258CCG (5285T>C) GTG262GTT (5273C>A) AAG263AAT (5270C>A)
8712023.3%19487.4%34 (100%)32 (94.1%)0/0/0/00
Protein mutations:
P87L (17871C>T)
Codon mutations:
CCT87CTT (17871C>T)
23136828.8%70977.9%138 (100%)106 (76.8%)0/0/0/00
Protein mutations:
S235T (35799T>A) R245K (35829C>A 35830G>A 35831T>A) N260T (35875A>C 35876T>A) N285T (35950A>C 35951T>G) N287G (35955A>G 35956A>G) G288R (35958G>A 35960C>G) S293A (35973T>G) S296N (35983G>A) T302I (36001C>T 36002T>A) D304N (36006G>A 36008T>C) N305E (36009A>G 36011C>G) V309I (36021G>A) A315S (36039G>T) P320A (36054C>G 36056A>T) S325N (36070G>A 36071C>T) A330E (36085C>A 36086G>A) I335L (36099A>C 36101C>T) A339S (36111G>T 36113A>T) N340G (36114A>G 36115A>G) D342S (36120G>T 36121A>C 36122T>A) A343I (36123G>A 36124C>T) S344D (36126T>G 36127C>A 36128T>C) A345D (36130C>A) D347G (36136A>G 36137T>C) M352I (36152G>T) G355S (36159G>T 36160G>C 36161A>T) A356S (36162G>T) N358S (36168A>T 36169A>C) P359F (36171C>T 36172C>T 36173G>T) I361L (36177A>C) V365I (36189G>A)
Codon mutations:
TCG232TCC (35792G>C) CTA233CTG (35795A>G) CGT234CGC (35798T>C) TCT235ACT (35799T>A) GCG236GCT (35804G>T) GGC237GGA (35807C>A) GGG238GGT (35810G>T) GCG239GCT (35813G>T) CCG241CCT (35819G>T) TCA243TCT (35825A>T) GTC244GTT (35828C>T) CGT245AAA (35829C>A 35830G>A 35831T>A) CAG248CAA (35840G>A) AAT251AAC (35849T>C) AGT252AGC (35852T>C) TTG253CTG (35853T>C) TCG254TCT (35858G>T) GAA256GAG (35864A>G) AAA259AAG (35873A>G) AAT260ACA (35875A>C 35876T>A) CGT265CGA (35891T>A) GGC266GGT (35894C>T) AGG267CGT (35895A>C 35897G>T) CCG268CCT (35900G>T) GCA270GCT (35906A>T) GGT271GGC (35909T>C) GAA273GAG (35915A>G) TTA278CTG (35928T>C 35930A>G) GAC280GAT (35936C>T) GGG281GGC (35939G>C) CGT282AGA (35940C>A 35942T>A) ACT283ACG (35945T>G) GTT284GTA (35948T>A) AAT285ACG (35950A>C 35951T>G) GTC286GTT (35954C>T) AAT287GGT (35955A>G 35956A>G) GGC288AGG (35958G>A 35960C>G) CTG290CTT (35966G>T) CAT291CAC (35969T>C) GGA292GGC (35972A>C) TCT293GCT (35973T>G) GGC294GGT (35978C>T) AGT296AAT (35983G>A) GCA297GCG (35987A>G) TTT298TTC (35990T>C) GGT301GGA (35999T>A) ACT302ATA (36001C>T 36002T>A) GAT304AAC (36006G>A 36008T>C) AAC305GAG (36009A>G 36011C>G) GGA306GGC (36014A>C) GTT309ATT (36021G>A) CGT310CGC (36026T>C) CCG312CCC (36032G>C) GCA313GCC (36035A>C) GCT315TCT (36039G>T) GCA317GCT (36047A>T) GCA318GCT (36050A>T) CCT319CCG (36053T>G) CCA320GCT (36054C>G 36056A>T) ACG321ACA (36059G>A) TCT322TCG (36062T>G) GCG323GCA (36065G>A) GCA324GCT (36068A>T) AGC325AAT (36070G>A 36071C>T) AAC328AAT (36080C>T) GCG330GAA (36085C>A 36086G>A) ATC335CTT (36099A>C 36101C>T) ATC338ATT (36110C>T) GCA339TCT (36111G>T 36113A>T) AAC340GGC (36114A>G 36115A>G) GAT342TCA (36120G>T 36121A>C 36122T>A) GCT343ATT (36123G>A 36124C>T) TCT344GAC (36126T>G 36127C>A 36128T>C) GCT345GAT (36130C>A) CTC346CTT (36134C>T) GAT347GGC (36136A>G 36137T>C) ACT350ACA (36146T>A) GGA351GGT (36149A>T) ATG352ATT (36152G>T) ACT353ACA (36155T>A) GGC354GGT (36158C>T) GGA355TCT (36159G>T 36160G>C 36161A>T) GCA356TCA (36162G>T) GGA357GGT (36167A>T) AAT358TCT (36168A>T 36169A>C) CCG359TTT (36171C>T 36172C>T 36173G>T) GCA360GCT (36176A>T) ATT361CTT (36177A>C) GTT365ATT (36189G>A) CGC366CGT (36194C>T)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43