Version 2.16.1
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Lederbergvirus HK620

Assembly

2625 (5 contig(s))
36.0
850
54.85 rpm (after QC)
1
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Lederbergvirus HK620 (Taxonomy ID: 2748764)
94.6667
95.6621
5
58

Alignment

4692.0 (NT) + 5602.0 (AA) = 10294.0
92.5636
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT12959296976.9%469289.4%2625 (100%)2485 (94.7%)0/0
Mutations:12996T>C, 17082G>A, 17109G>A, 17121C>T, 17127G>T, 17130G>A, 17145G>A, 17154C>T, 17156C>T, 17157T>G, 17161C>G, 17162C>G, 17163G>T, 17164A>G, 17167A>T, 17171A>G, 17174G>C, 26818G>A, 26824T>A, 26845C>T, 26884A>C, 26895G>R, 26908C>T, 26935T>A, 27517T>G, 27586A>G, 27607G>A, 27613T>C, 27643A>G, 27646C>T, 27661G>T, 27662T>C, 27709G>T, 27733T>C, 27778A>T, 27811C>T, 27865T>C, 27901A>C, 27928T>C, 27954T>C, 27955G>A, 27956A>C, 27957G>C, 27960A>T, 27963A>T, 27966C>T, 27967A>G, 27969C>G, 28011C>A, 28015T>A, 28016C>G, 28017G>C, 28023G>T, 28026T>C, 28032T>G, 28035C>T, 28038T>C, 28041C>T, 28042G>A, 28043C>A, 28044A>T, 28050C>G, 28051A>G, 28059T>C, 28062T>C, 28063A>G, 28064A>C, 28065C>A, 28066G>A, 28068G>T, 28071T>C, 28072A>G, 28073A>G, 28074C>G, 28077G>A, 28080C>A, 28083C>T, 28084G>C, 28110C>T, 28116A>G, 28134C>T, 28137T>C, 28165G>A, 28189A>C, 28212T>C, 28230C>T, 28330G>A, 28371C>A, 28464T>A, 28467A>G, 28555C>A, 28721C>T, 28745A>T, 28765G>A, 28775A>T, 28781C>T, 28817G>T, 28874T>A, 28904T>C, 28931G>A, 28934C>T, 28940G>A, 28994C>A, 29109A>C, 29142G>A, 29143G>T, 29145G>A, 29173C>T, 29197C>A, 29218A>C, 29268C>T, 29286A>G, 29287T>G, 29305C>T, 29383T>A, 29410T>G, 29503T>A, 29506G>A, 29515C>T, 29519C>A, 29521G>C, 29524T>C, 29605G>A, 29614T>C, 29635T>C, 29642A>C, 29647A>G, 29654A>T, 29659A>G, 29660T>C, 29661C>A, 29662T>G, 29664C>G, 29666A>G, 29669G>A, 29671C>T, 29674A>T, 29676G>C, 29680G>A, 29683T>C
CDS
12413710.2%9996.1%14 (100%)14 (100%)0/0/0/01
11931.1%147100%19 (100%)19 (100%)0/0/0/00
7411123.9%20773.4%38 (100%)31 (81.6%)0/0/0/00
Protein mutations:A104V (17156C>T 17157T>G), P106G (17161C>G 17162C>G 17163G>T), M107V (17164A>G), I108F (17167A>T), D109G (17171A>G), R110P (17174G>C)
Codon mutations:AAG79AAA (17082G>A), CCG88CCA (17109G>A), GAC92GAT (17121C>T), GTG94GTT (17127G>T), GCG95GCA (17130G>A), AAG100AAA (17145G>A), GGC103GGT (17154C>T), GCT104GTG (17156C>T 17157T>G), CCG106GGT (17161C>G 17162C>G 17163G>T), ATG107GTG (17164A>G), ATT108TTT (17167A>T), GAT109GGT (17171A>G), CGC110CCC (17174G>C)
1141456.8%23994.8%32 (100%)31 (96.9%)0/0/0/00
9847339.1%120794.4%185 (100%)182 (98.4%)0/0/1/02
Protein mutations:Y334* (27517T>G)
Codon mutations:CGG101CGA (26818G>A), TCT103TCA (26824T>A), GGC110GGT (26845C>T), ACA123ACC (26884A>C), TGG127TRG (26895G>R), AGC131AGT (26908C>T), TCT140TCA (26935T>A), TAT334TAG (27517T>G), GAA357GAG (27586A>G), CAG364CAA (27607G>A), GAT366GAC (27613T>C), GAA376GAG (27643A>G), CAC377CAT (27646C>T), CCG382CCT (27661G>T), TTG383CTG (27662T>C), TCG398TCT (27709G>T), GCT406GCC (27733T>C), GGA421GGT (27778A>T), TTC432TTT (27811C>T), GTT450GTC (27865T>C), GTA462GTC (27901A>C), ATT471ATC (27928T>C)
1234100%140996.6%234 (100%)222 (94.9%)0/0/0/01
Protein mutations:E8T (27955G>A 27956A>C 27957G>C), I12V (27967A>G 27969C>G), A37N (28042G>A 28043C>A 28044A>T), T40A (28051A>G), N44A (28063A>G 28064A>C 28065C>A), V45I (28066G>A 28068G>T), N47G (28072A>G 28073A>G 28074C>G), E51Q (28084G>C), A78T (28165G>A), I86L (28189A>C), V133I (28330G>A), L208I (28555C>A)
Codon mutations:AAT7AAC (27954T>C), GAG8ACC (27955G>A 27956A>C 27957G>C), CCA9CCT (27960A>T), GTA10GTT (27963A>T), ATC11ATT (27966C>T), ATC12GTG (27967A>G 27969C>G), ATC26ATA (28011C>A), TCG28AGC (28015T>A 28016C>G 28017G>C), TCG30TCT (28023G>T), TAT31TAC (28026T>C), CTT33CTG (28032T>G), TAC34TAT (28035C>T), GTT35GTC (28038T>C), ATC36ATT (28041C>T), GCA37AAT (28042G>A 28043C>A 28044A>T), GGC39GGG (28050C>G), ACT40GCT (28051A>G), GTT42GTC (28059T>C), GGT43GGC (28062T>C), AAC44GCA (28063A>G 28064A>C 28065C>A), GTG45ATT (28066G>A 28068G>T), GCT46GCC (28071T>C), AAC47GGG (28072A>G 28073A>G 28074C>G), AAG48AAA (28077G>A), GCC49GCA (28080C>A), AAC50AAT (28083C>T), GAG51CAG (28084G>C), GCC59GCT (28110C>T), GTA61GTG (28116A>G), GAC67GAT (28134C>T), GTT68GTC (28137T>C), GCC78ACC (28165G>A), ATC86CTC (28189A>C), ACT93ACC (28212T>C), GTC99GTT (28230C>T), GTA133ATA (28330G>A), ACC146ACA (28371C>A), ACT177ACA (28464T>A), GCA178GCG (28467A>G), CTC208ATC (28555C>A)
1152100%111099.2%152 (100%)150 (98.7%)0/0/0/01
Protein mutations:E37D (28745A>T), S44N (28765G>A)
Codon mutations:GGC29GGT (28721C>T), GAA37GAT (28745A>T), AGC44AAC (28765G>A), GGA47GGT (28775A>T), TTC49TTT (28781C>T), CTG61CTT (28817G>T), ATT80ATA (28874T>A), ACT90ACC (28904T>C), TCG99TCA (28931G>A), TTC100TTT (28934C>T), GCG102GCA (28940G>A), GTC120GTA (28994C>A)
120287.4%118491.1%202 (100%)189 (93.6%)0/0/0/00
Protein mutations:K6T (29109A>C), W17Y (29142G>A 29143G>T), C18Y (29145G>A), P59L (29268C>T), D65G (29286A>G 29287T>G), Q143N (29519C>A 29521G>C), M188L (29654A>T), S190Q (29660T>C 29661C>A 29662T>G), A191G (29664C>G), I192V (29666A>G), G193S (29669G>A 29671C>T), G195A (29676G>C)
Codon mutations:AAG6ACG (29109A>C), TGG17TAT (29142G>A 29143G>T), TGC18TAC (29145G>A), AGC27AGT (29173C>T), GCC35GCA (29197C>A), GCA42GCC (29218A>C), CCG59CTG (29268C>T), GAT65GGG (29286A>G 29287T>G), CTC71CTT (29305C>T), GCT97GCA (29383T>A), GCT106GCG (29410T>G), GGT137GGA (29503T>A), CAG138CAA (29506G>A), AAC141AAT (29515C>T), CAG143AAC (29519C>A 29521G>C), AAT144AAC (29524T>C), TCG171TCA (29605G>A), AGT174AGC (29614T>C), AAT181AAC (29635T>C), AGA184CGA (29642A>C), CCA185CCG (29647A>G), ATG188TTG (29654A>T), CAA189CAG (29659A>G), TCT190CAG (29660T>C 29661C>A 29662T>G), GCT191GGT (29664C>G), ATT192GTT (29666A>G), GGC193AGT (29669G>A 29671C>T), GGA194GGT (29674A>T), GGT195GCT (29676G>C), GCG196GCA (29680G>A), TCT197TCC (29683T>C)
Proteins
12413710.2%9996.1%14 (100%)14 (100%)0/0/0/01
Protein mutations:none
Codon mutations:TAT135TAC (12996T>C)
11931.1%147100%19 (100%)19 (100%)0/0/0/00
Protein mutations:none
Codon mutations:none
7411123.9%20773.4%38 (100%)31 (81.6%)0/0/0/00
Protein mutations:A104V (17156C>T 17157T>G), P106G (17161C>G 17162C>G 17163G>T), M107V (17164A>G), I108F (17167A>T), D109G (17171A>G), R110P (17174G>C)
Codon mutations:AAG79AAA (17082G>A), CCG88CCA (17109G>A), GAC92GAT (17121C>T), GTG94GTT (17127G>T), GCG95GCA (17130G>A), AAG100AAA (17145G>A), GGC103GGT (17154C>T), GCT104GTG (17156C>T 17157T>G), CCG106GGT (17161C>G 17162C>G 17163G>T), ATG107GTG (17164A>G), ATT108TTT (17167A>T), GAT109GGT (17171A>G), CGC110CCC (17174G>C)
1141456.8%23994.8%32 (100%)31 (96.9%)0/0/0/00
Protein mutations:none
Codon mutations:none
9847339.1%120794.4%185 (100%)182 (98.4%)0/0/1/02
Protein mutations:Y334* (27517T>G)
Codon mutations:CGG101CGA (26818G>A), TCT103TCA (26824T>A), GGC110GGT (26845C>T), ACA123ACC (26884A>C), TGG127TRG (26895G>R), AGC131AGT (26908C>T), TCT140TCA (26935T>A), TAT334TAG (27517T>G), GAA357GAG (27586A>G), CAG364CAA (27607G>A), GAT366GAC (27613T>C), GAA376GAG (27643A>G), CAC377CAT (27646C>T), CCG382CCT (27661G>T), TTG383CTG (27662T>C), TCG398TCT (27709G>T), GCT406GCC (27733T>C), GGA421GGT (27778A>T), TTC432TTT (27811C>T), GTT450GTC (27865T>C), GTA462GTC (27901A>C), ATT471ATC (27928T>C)
1234100%140996.6%234 (100%)222 (94.9%)0/0/0/01
Protein mutations:E8T (27955G>A 27956A>C 27957G>C), I12V (27967A>G 27969C>G), A37N (28042G>A 28043C>A 28044A>T), T40A (28051A>G), N44A (28063A>G 28064A>C 28065C>A), V45I (28066G>A 28068G>T), N47G (28072A>G 28073A>G 28074C>G), E51Q (28084G>C), A78T (28165G>A), I86L (28189A>C), V133I (28330G>A), L208I (28555C>A)
Codon mutations:AAT7AAC (27954T>C), GAG8ACC (27955G>A 27956A>C 27957G>C), CCA9CCT (27960A>T), GTA10GTT (27963A>T), ATC11ATT (27966C>T), ATC12GTG (27967A>G 27969C>G), ATC26ATA (28011C>A), TCG28AGC (28015T>A 28016C>G 28017G>C), TCG30TCT (28023G>T), TAT31TAC (28026T>C), CTT33CTG (28032T>G), TAC34TAT (28035C>T), GTT35GTC (28038T>C), ATC36ATT (28041C>T), GCA37AAT (28042G>A 28043C>A 28044A>T), GGC39GGG (28050C>G), ACT40GCT (28051A>G), GTT42GTC (28059T>C), GGT43GGC (28062T>C), AAC44GCA (28063A>G 28064A>C 28065C>A), GTG45ATT (28066G>A 28068G>T), GCT46GCC (28071T>C), AAC47GGG (28072A>G 28073A>G 28074C>G), AAG48AAA (28077G>A), GCC49GCA (28080C>A), AAC50AAT (28083C>T), GAG51CAG (28084G>C), GCC59GCT (28110C>T), GTA61GTG (28116A>G), GAC67GAT (28134C>T), GTT68GTC (28137T>C), GCC78ACC (28165G>A), ATC86CTC (28189A>C), ACT93ACC (28212T>C), GTC99GTT (28230C>T), GTA133ATA (28330G>A), ACC146ACA (28371C>A), ACT177ACA (28464T>A), GCA178GCG (28467A>G), CTC208ATC (28555C>A)
1152100%111099.2%152 (100%)150 (98.7%)0/0/0/01
Protein mutations:E37D (28745A>T), S44N (28765G>A)
Codon mutations:GGC29GGT (28721C>T), GAA37GAT (28745A>T), AGC44AAC (28765G>A), GGA47GGT (28775A>T), TTC49TTT (28781C>T), CTG61CTT (28817G>T), ATT80ATA (28874T>A), ACT90ACC (28904T>C), TCG99TCA (28931G>A), TTC100TTT (28934C>T), GCG102GCA (28940G>A), GTC120GTA (28994C>A)
120287.4%118491.1%202 (100%)189 (93.6%)0/0/0/00
Protein mutations:K6T (29109A>C), W17Y (29142G>A 29143G>T), C18Y (29145G>A), P59L (29268C>T), D65G (29286A>G 29287T>G), Q143N (29519C>A 29521G>C), M188L (29654A>T), S190Q (29660T>C 29661C>A 29662T>G), A191G (29664C>G), I192V (29666A>G), G193S (29669G>A 29671C>T), G195A (29676G>C)
Codon mutations:AAG6ACG (29109A>C), TGG17TAT (29142G>A 29143G>T), TGC18TAC (29145G>A), AGC27AGT (29173C>T), GCC35GCA (29197C>A), GCA42GCC (29218A>C), CCG59CTG (29268C>T), GAT65GGG (29286A>G 29287T>G), CTC71CTT (29305C>T), GCT97GCA (29383T>A), GCT106GCG (29410T>G), GGT137GGA (29503T>A), CAG138CAA (29506G>A), AAC141AAT (29515C>T), CAG143AAC (29519C>A 29521G>C), AAT144AAC (29524T>C), TCG171TCA (29605G>A), AGT174AGC (29614T>C), AAT181AAC (29635T>C), AGA184CGA (29642A>C), CCA185CCG (29647A>G), ATG188TTG (29654A>T), CAA189CAG (29659A>G), TCT190CAG (29660T>C 29661C>A 29662T>G), GCT191GGT (29664C>G), ATT192GTT (29666A>G), GGC193AGT (29669G>A 29671C>T), GGA194GGT (29674A>T), GGT195GCT (29676G>C), GCG196GCA (29680G>A), TCT197TCC (29683T>C)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43