Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Escherichia Stx1 converting phage

Assembly

583 (2 contig(s))
28.1
157
10.13 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Escherichia Stx1 converting phage (Taxonomy ID: 194948)
93.3682
89.1304
2
167

Alignment

975.0 (NT) + 994.0 (AA) = 1969.0
86.4734
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT28412529241.0%97586.5%573 (98.3%)535 (91.8%)0/10
Mutations:
28421G>A 28423A>G 28428A>T 28434C>T 28438T>C 28439T>G 28451T>C 28457A>G 28464G>A 28465T>A 28468A>G 28469C>T 28491A>G 28506C>T 28645C>G 28648G>T 28651T>C 28652T>C 28653C>G 28654A>T 28655G>T 28659G>A 28693C>A 28705G>A 28732G>T 28747C>T 28791T>C 28793C>G 28795T>C 28796T>A 28797T>C 28799C>T 28803A>C 52753C>T 52825_52834delCTTATGGACA 52849A>T 52859T>G 52879C>T 52915T>C
CDS
171100%37786.1%71 (100%)63 (88.7%)0/0/0/01
Protein mutations:
L2N (28653C>G 28654A>T 28655G>T) N3G (28651T>C 28652T>C) T4K (28648G>T) C5S (28645C>G) V64T (28468A>G 28469C>T) D65V (28464G>A 28465T>A) S68P (28457A>G) K70E (28451T>C)
Codon mutations:
CTG2AAC (28653C>G 28654A>T 28655G>T) AAC3GGC (28651T>C 28652T>C) ACA4AAA (28648G>T) TGT5TCT (28645C>G) GTG51GTA (28506C>T) GGT56GGC (28491A>G) GTA64ACA (28468A>G 28469C>T) GAC65GTT (28464G>A 28465T>A) TCT68CCT (28457A>G) AAG70GAG (28451T>C)
15622.4%31378.3%56 (100%)46 (82.1%)0/0/0/01
Protein mutations:
M1I (28648G>T) S3R (28652T>C 28653C>G 28654A>T) A4S (28655G>T) W5* (28659G>A) M20I (28705G>A) L49P (28791T>C) L50V (28793C>G 28795T>C) F51T (28796T>A 28797T>C) P52S (28799C>T) Q53P (28803A>C)
Codon mutations:
ATG1ATT (28648G>T) TGT2TGC (28651T>C) TCA3CGT (28652T>C 28653C>G 28654A>T) GCA4TCA (28655G>T) TGG5TAG (28659G>A) GCC16GCA (28693C>A) ATG20ATA (28705G>A) CCG29CCT (28732G>T) CCC34CCT (28747C>T) CTC49CCC (28791T>C) CTT50GTC (28793C>G 28795T>C) TTC51ACC (28796T>A 28797T>C) CCG52TCG (28799C>T) CAA53CCA (28803A>C)
36255.6%30467.7%57 (95.0%)55 (91.7%)0/3/1/10
Protein mutations:
Q24P (52859T>G) V33_K35del (52825_52834delCTTATGGACA)
Codon mutations:
GGA5GGG (52915T>C) TTG17TTA (52879C>T) CAG24CCG (52859T>G) CCT27CCA (52849A>T) TTT32TT- (52825_52834delCTTATGGACA) GTC33_AAG35del (52825_52834delCTTATGGACA) GAG59GAA (52753C>T)
Proteins
171100%37786.1%71 (100%)63 (88.7%)0/0/0/01
Protein mutations:
L2N (28653C>G 28654A>T 28655G>T) N3G (28651T>C 28652T>C) T4K (28648G>T) C5S (28645C>G) V64T (28468A>G 28469C>T) D65V (28464G>A 28465T>A) S68P (28457A>G) K70E (28451T>C)
Codon mutations:
CTG2AAC (28653C>G 28654A>T 28655G>T) AAC3GGC (28651T>C 28652T>C) ACA4AAA (28648G>T) TGT5TCT (28645C>G) GTG51GTA (28506C>T) GGT56GGC (28491A>G) GTA64ACA (28468A>G 28469C>T) GAC65GTT (28464G>A 28465T>A) TCT68CCT (28457A>G) AAG70GAG (28451T>C)
15622.4%31378.3%56 (100%)46 (82.1%)0/0/0/01
Protein mutations:
M1I (28648G>T) S3R (28652T>C 28653C>G 28654A>T) A4S (28655G>T) W5* (28659G>A) M20I (28705G>A) L49P (28791T>C) L50V (28793C>G 28795T>C) F51T (28796T>A 28797T>C) P52S (28799C>T) Q53P (28803A>C)
Codon mutations:
ATG1ATT (28648G>T) TGT2TGC (28651T>C) TCA3CGT (28652T>C 28653C>G 28654A>T) GCA4TCA (28655G>T) TGG5TAG (28659G>A) GCC16GCA (28693C>A) ATG20ATA (28705G>A) CCG29CCT (28732G>T) CCC34CCT (28747C>T) CTC49CCC (28791T>C) CTT50GTC (28793C>G 28795T>C) TTC51ACC (28796T>A 28797T>C) CCG52TCG (28799C>T) CAA53CCA (28803A>C)
36255.6%30467.7%57 (95.0%)55 (91.7%)0/3/1/10
Protein mutations:
Q24P (52859T>G) V33_K35del (52825_52834delCTTATGGACA)
Codon mutations:
GGA5GGG (52915T>C) TTG17TTA (52879C>T) CAG24CCG (52859T>G) CCT27CCA (52849A>T) TTT32TT- (52825_52834delCTTATGGACA) GTC33_AAG35del (52825_52834delCTTATGGACA) GAG59GAA (52753C>T)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43