Version 2.16.3
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Baboon endogenous virus strain M7

Assembly

683 (6 contig(s))
1.5
11
0.71 rpm (after QC)
19
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Baboon endogenous virus strain M7 (Taxonomy ID: 11764)
85.0659
79.7297
1
3

Alignment

996.0 (NT) + 1328.0 (AA) = 2324.0
69.105
Global, seeded, nucleotide + amino acids (AGA)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT106954208.0%99672.9%683 (100%)581 (85.1%)0/0
Mutations:1083A>G, 1084C>A, 1085G>A, 1088G>T, 1089G>T, 1092A>G, 1097T>A, 1102T>A, 1103C>T, 1107C>A, 1110G>A, 1116C>A, 1118C>A, 1120C>Y, 1122T>Y, 1123C>S, 1125T>Y, 1128C>R, 1130G>R, 1131G>R, 1139G>A, 1140G>A, 1143C>M, 1149T>W, 1152T>Y, 1153G>S, 1158C>M, 1159T>Y, 1161C>Y, 1162G>A, 1167T>Y, 1170G>R, 1171C>Y, 1176T>Y, 1179G>A, 1180A>G, 1185G>A, 1188A>G, 1192G>A, 2421C>T, 2430T>A, 2436A>C, 2437A>G, 2439G>A, 2440G>A, 2460A>G, 2462G>A, 2463A>G, 2472T>C, 2480A>G, 2481T>A, 2484G>A, 3825T>K, 3878T>C, 4035C>T, 4044G>A, 4047C>T, 4050T>C, 4060C>T, 4062G>A, 4065C>T, 4068A>G, 4077G>A, 4083C>A, 4093C>T, 4095G>A, 4101A>G, 4113T>C, 4119A>G, 4124C>T, 4134C>T, 4140C>T, 4143G>A, 4149G>A, 4152C>T, 4158G>A, 4161G>A, 4164C>T, 4167C>T, 4246C>T, 4267A>G, 4287G>A, 4308A>T, 4317A>G, 4321C>T, 4323A>G, 4342T>C, 4345C>T, 4353G>A, 4364A>G, 5295T>C, 5301T>C, 5303A>G, 5313A>G, 5315T>C, 5316C>T, 5325A>G, 5326A>G, 5377G>C, 5392T>C, 5414T>A, 5415T>A
CDS
29147913.3%119369.9%229 (100%)192 (83.8%)0/0/10/01
Protein mutations:R34K (1084C>A 1085G>A), W35F (1088G>T 1089G>T), F38Y (1097T>A), S40M (1102T>A 1103C>T), T45N (1118C>A), R52Q (1139G>A 1140G>A), V60I (1162G>A), K484N (2436A>C), R485G (2437A>G 2439G>A), A486T (2440G>A), R493K (2462G>A 2463A>G), D499G (2480A>G 2481T>A), F965S (3878T>C), P1047L (4124C>T), T1095A (4267A>G), Q1127R (4364A>G), N1440S (5303A>G), V1444A (5315T>C 5316C>T), I1448V (5326A>G), V1465L (5377G>C), F1470L (5392T>C), F1477* (5414T>A 5415T>A)
Codon mutations:GGA33GGG (1083A>G), CGA34AAA (1084C>A 1085G>A), TGG35TTT (1088G>T 1089G>T), CAA36CAG (1092A>G), TTC38TAC (1097T>A), TCG40ATG (1102T>A 1103C>T), TCC41TCA (1107C>A), GAG42GAA (1110G>A), CCC44CCA (1116C>A), ACC45AAC (1118C>A), CTT46YTY (1120C>Y 1122T>Y), CAT47SAY (1123C>S 1125T>Y), GTC48GTR (1128C>R), GGG49GRR (1130G>R 1131G>R), CGG52CAA (1139G>A 1140G>A), GAC53GAM (1143C>M), ACT55ACW (1149T>W), TTT56TTY (1152T>Y), GAC57SAC (1153G>S), CTC58CTM (1158C>M), TCC59YCY (1159T>Y 1161C>Y), GTT60ATT (1162G>A), ATT61ATY (1167T>Y), TTG62TTR (1170G>R), CAG63YAG (1171C>Y), GTT64GTY (1176T>Y), AAG65AAA (1179G>A), ACA66G.. (1180A>G), AAG67..A (1185G>A), GTA68..G (1188A>G), GAT70A.. (1192G>A), GCC479GCT (2421C>T), ACT482ACA (2430T>A), AAA484AAC (2436A>C), AGG485GGA (2437A>G 2439G>A), GCA486ACA (2440G>A), ACA492ACG (2460A>G), AGA493AAG (2462G>A 2463A>G), CCT496CCC (2472T>C), GAT499GGA (2480A>G 2481T>A), AAG500AAA (2484G>A), ATT947ATK (3825T>K), TTC965TCC (3878T>C), GAC1017.AT (4035C>T), AAG1020AAA (4044G>A), CCC1021CCT (4047C>T), TTT1022TTC (4050T>C), CTG1026TTA (4060C>T 4062G>A), GAC1027GAT (4065C>T), GAA1028GAG (4068A>G), GGG1031GGA (4077G>A), GCC1033GCA (4083C>A), CTG1037TTA (4093C>T 4095G>A), CAA1039CAG (4101A>G), CCT1043CCC (4113T>C), AAA1045AAG (4119A>G), CCG1047CTG (4124C>T), TAC1050TAT (4134C>T), TCC1052TCT (4140C>T), AAG1053AAA (4143G>A), CTG1055CTA (4149G>A), GAC1056GAT (4152C>T), GTG1058GTA (4158G>A), GCG1059GCA (4161G>A), GCC1060GCT (4164C>T), GGC1061GGT (4167C>T), CTG1088TTG (4246C>T), ACT1095GCT (4267A>G), CGG1101CGA (4287G>A), ATA1108ATT (4308A>T), GCA1111GCG (4317A>G), CTA1113TTG (4321C>T 4323A>G), TTA1120CTA (4342T>C), CTG1121TTG (4345C>T), ACG1123ACA (4353G>A), CAG1127CGG (4364A>G), ACT1437.CC (5295T>C), GGT1439GGC (5301T>C), AAC1440AGC (5303A>G), GGA1443GGG (5313A>G), GTC1444GCT (5315T>C 5316C>T), GAA1447GAG (5325A>G), ATA1448GTA (5326A>G), GTG1465CTG (5377G>C), TTT1470CTT (5392T>C), TTT1477TAA (5414T>A 5415T>A)
2950212.5%13527.6%67 (100%)44 (65.7%)0/0/9/00
Protein mutations:R34K (1084C>A 1085G>A), W35F (1088G>T 1089G>T), F38Y (1097T>A), S40M (1102T>A 1103C>T), T45N (1118C>A), R52Q (1139G>A 1140G>A), V60I (1162G>A), K484N (2436A>C), R485G (2437A>G 2439G>A), A486T (2440G>A), R493K (2462G>A 2463A>G), D499G (2480A>G 2481T>A)
Codon mutations:GGA33GGG (1083A>G), CGA34AAA (1084C>A 1085G>A), TGG35TTT (1088G>T 1089G>T), CAA36CAG (1092A>G), TTC38TAC (1097T>A), TCG40ATG (1102T>A 1103C>T), TCC41TCA (1107C>A), GAG42GAA (1110G>A), CCC44CCA (1116C>A), ACC45AAC (1118C>A), CTT46YTY (1120C>Y 1122T>Y), CAT47SAY (1123C>S 1125T>Y), GTC48GTR (1128C>R), GGG49GRR (1130G>R 1131G>R), CGG52CAA (1139G>A 1140G>A), GAC53GAM (1143C>M), ACT55ACW (1149T>W), TTT56TTY (1152T>Y), GAC57SAC (1153G>S), CTC58CTM (1158C>M), TCC59YCY (1159T>Y 1161C>Y), GTT60ATT (1162G>A), ATT61ATY (1167T>Y), TTG62TTR (1170G>R), CAG63YAG (1171C>Y), GTT64GTY (1176T>Y), AAG65AAA (1179G>A), ACA66G.. (1180A>G), AAG67..A (1185G>A), GTA68..G (1188A>G), GAT70A.. (1192G>A), GCC479GCT (2421C>T), ACT482ACA (2430T>A), AAA484AAC (2436A>C), AGG485GGA (2437A>G 2439G>A), GCA486ACA (2440G>A), ACA492ACG (2460A>G), AGA493AAG (2462G>A 2463A>G), CCT496CCC (2472T>C), GAT499GGA (2480A>G 2481T>A), AAG500AAA (2484G>A)
Proteins
29147913.3%119369.9%229 (100%)192 (83.8%)0/0/10/01
Protein mutations:R34K (1084C>A 1085G>A), W35F (1088G>T 1089G>T), F38Y (1097T>A), S40M (1102T>A 1103C>T), T45N (1118C>A), R52Q (1139G>A 1140G>A), V60I (1162G>A), K484N (2436A>C), R485G (2437A>G 2439G>A), A486T (2440G>A), R493K (2462G>A 2463A>G), D499G (2480A>G 2481T>A), F965S (3878T>C), P1047L (4124C>T), T1095A (4267A>G), Q1127R (4364A>G), N1440S (5303A>G), V1444A (5315T>C 5316C>T), I1448V (5326A>G), V1465L (5377G>C), F1470L (5392T>C), F1477* (5414T>A 5415T>A)
Codon mutations:GGA33GGG (1083A>G), CGA34AAA (1084C>A 1085G>A), TGG35TTT (1088G>T 1089G>T), CAA36CAG (1092A>G), TTC38TAC (1097T>A), TCG40ATG (1102T>A 1103C>T), TCC41TCA (1107C>A), GAG42GAA (1110G>A), CCC44CCA (1116C>A), ACC45AAC (1118C>A), CTT46YTY (1120C>Y 1122T>Y), CAT47SAY (1123C>S 1125T>Y), GTC48GTR (1128C>R), GGG49GRR (1130G>R 1131G>R), CGG52CAA (1139G>A 1140G>A), GAC53GAM (1143C>M), ACT55ACW (1149T>W), TTT56TTY (1152T>Y), GAC57SAC (1153G>S), CTC58CTM (1158C>M), TCC59YCY (1159T>Y 1161C>Y), GTT60ATT (1162G>A), ATT61ATY (1167T>Y), TTG62TTR (1170G>R), CAG63YAG (1171C>Y), GTT64GTY (1176T>Y), AAG65AAA (1179G>A), ACA66G.. (1180A>G), AAG67..A (1185G>A), GTA68..G (1188A>G), GAT70A.. (1192G>A), GCC479GCT (2421C>T), ACT482ACA (2430T>A), AAA484AAC (2436A>C), AGG485GGA (2437A>G 2439G>A), GCA486ACA (2440G>A), ACA492ACG (2460A>G), AGA493AAG (2462G>A 2463A>G), CCT496CCC (2472T>C), GAT499GGA (2480A>G 2481T>A), AAG500AAA (2484G>A), ATT947ATK (3825T>K), TTC965TCC (3878T>C), GAC1017.AT (4035C>T), AAG1020AAA (4044G>A), CCC1021CCT (4047C>T), TTT1022TTC (4050T>C), CTG1026TTA (4060C>T 4062G>A), GAC1027GAT (4065C>T), GAA1028GAG (4068A>G), GGG1031GGA (4077G>A), GCC1033GCA (4083C>A), CTG1037TTA (4093C>T 4095G>A), CAA1039CAG (4101A>G), CCT1043CCC (4113T>C), AAA1045AAG (4119A>G), CCG1047CTG (4124C>T), TAC1050TAT (4134C>T), TCC1052TCT (4140C>T), AAG1053AAA (4143G>A), CTG1055CTA (4149G>A), GAC1056GAT (4152C>T), GTG1058GTA (4158G>A), GCG1059GCA (4161G>A), GCC1060GCT (4164C>T), GGC1061GGT (4167C>T), CTG1088TTG (4246C>T), ACT1095GCT (4267A>G), CGG1101CGA (4287G>A), ATA1108ATT (4308A>T), GCA1111GCG (4317A>G), CTA1113TTG (4321C>T 4323A>G), TTA1120CTA (4342T>C), CTG1121TTG (4345C>T), ACG1123ACA (4353G>A), CAG1127CGG (4364A>G), ACT1437.CC (5295T>C), GGT1439GGC (5301T>C), AAC1440AGC (5303A>G), GGA1443GGG (5313A>G), GTC1444GCT (5315T>C 5316C>T), GAA1447GAG (5325A>G), ATA1448GTA (5326A>G), GTG1465CTG (5377G>C), TTT1470CTT (5392T>C), TTT1477TAA (5414T>A 5415T>A)
40894913.5%105886.9%162 (100%)148 (91.4%)0/0/1/01
Protein mutations:F435S (3878T>C), P517L (4124C>T), T565A (4267A>G), Q597R (4364A>G), N910S (5303A>G), V914A (5315T>C 5316C>T), I918V (5326A>G), V935L (5377G>C), F940L (5392T>C), F947* (5414T>A 5415T>A)
Codon mutations:ATT417ATK (3825T>K), TTC435TCC (3878T>C), GAC487.AT (4035C>T), AAG490AAA (4044G>A), CCC491CCT (4047C>T), TTT492TTC (4050T>C), CTG496TTA (4060C>T 4062G>A), GAC497GAT (4065C>T), GAA498GAG (4068A>G), GGG501GGA (4077G>A), GCC503GCA (4083C>A), CTG507TTA (4093C>T 4095G>A), CAA509CAG (4101A>G), CCT513CCC (4113T>C), AAA515AAG (4119A>G), CCG517CTG (4124C>T), TAC520TAT (4134C>T), TCC522TCT (4140C>T), AAG523AAA (4143G>A), CTG525CTA (4149G>A), GAC526GAT (4152C>T), GTG528GTA (4158G>A), GCG529GCA (4161G>A), GCC530GCT (4164C>T), GGC531GGT (4167C>T), CTG558TTG (4246C>T), ACT565GCT (4267A>G), CGG571CGA (4287G>A), ATA578ATT (4308A>T), GCA581GCG (4317A>G), CTA583TTG (4321C>T 4323A>G), TTA590CTA (4342T>C), CTG591TTG (4345C>T), ACG593ACA (4353G>A), CAG597CGG (4364A>G), ACT907.CC (5295T>C), GGT909GGC (5301T>C), AAC910AGC (5303A>G), GGA913GGG (5313A>G), GTC914GCT (5315T>C 5316C>T), GAA917GAG (5325A>G), ATA918GTA (5326A>G), GTG935CTG (5377G>C), TTT940CTT (5392T>C), TTT947TAA (5414T>A 5415T>A)
28047317.7%77787.9%120 (100%)113 (94.2%)0/0/1/00
Protein mutations:F307S (3878T>C), P389L (4124C>T), T437A (4267A>G), Q469R (4364A>G)
Codon mutations:ATT289ATK (3825T>K), TTC307TCC (3878T>C), GAC359.AT (4035C>T), AAG362AAA (4044G>A), CCC363CCT (4047C>T), TTT364TTC (4050T>C), CTG368TTA (4060C>T 4062G>A), GAC369GAT (4065C>T), GAA370GAG (4068A>G), GGG373GGA (4077G>A), GCC375GCA (4083C>A), CTG379TTA (4093C>T 4095G>A), CAA381CAG (4101A>G), CCT385CCC (4113T>C), AAA387AAG (4119A>G), CCG389CTG (4124C>T), TAC392TAT (4134C>T), TCC394TCT (4140C>T), AAG395AAA (4143G>A), CTG397CTA (4149G>A), GAC398GAT (4152C>T), GTG400GTA (4158G>A), GCG401GCA (4161G>A), GCC402GCT (4164C>T), GGC403GGT (4167C>T), CTG430TTG (4246C>T), ACT437GCT (4267A>G), CGG443CGA (4287G>A), ATA450ATT (4308A>T), GCA453GCG (4317A>G), CTA455TTG (4321C>T 4323A>G), TTA462CTA (4342T>C), CTG463TTG (4345C>T), ACG465ACA (4353G>A), CAG469CGG (4364A>G)
10314410.7%28184.1%42 (100%)35 (83.3%)0/0/0/01
Protein mutations:N105S (5303A>G), V109A (5315T>C 5316C>T), I113V (5326A>G), V130L (5377G>C), F135L (5392T>C), F142* (5414T>A 5415T>A)
Codon mutations:ACT102.CC (5295T>C), GGT104GGC (5301T>C), AAC105AGC (5303A>G), GGA108GGG (5313A>G), GTC109GCT (5315T>C 5316C>T), GAA112GAG (5325A>G), ATA113GTA (5326A>G), GTG130CTG (5377G>C), TTT135CTT (5392T>C), TTT142TAA (5414T>A 5415T>A)
2950212.5%13527.6%67 (100%)44 (65.7%)0/0/9/00
Protein mutations:R34K (1084C>A 1085G>A), W35F (1088G>T 1089G>T), F38Y (1097T>A), S40M (1102T>A 1103C>T), T45N (1118C>A), R52Q (1139G>A 1140G>A), V60I (1162G>A), K484N (2436A>C), R485G (2437A>G 2439G>A), A486T (2440G>A), R493K (2462G>A 2463A>G), D499G (2480A>G 2481T>A)
Codon mutations:GGA33GGG (1083A>G), CGA34AAA (1084C>A 1085G>A), TGG35TTT (1088G>T 1089G>T), CAA36CAG (1092A>G), TTC38TAC (1097T>A), TCG40ATG (1102T>A 1103C>T), TCC41TCA (1107C>A), GAG42GAA (1110G>A), CCC44CCA (1116C>A), ACC45AAC (1118C>A), CTT46YTY (1120C>Y 1122T>Y), CAT47SAY (1123C>S 1125T>Y), GTC48GTR (1128C>R), GGG49GRR (1130G>R 1131G>R), CGG52CAA (1139G>A 1140G>A), GAC53GAM (1143C>M), ACT55ACW (1149T>W), TTT56TTY (1152T>Y), GAC57SAC (1153G>S), CTC58CTM (1158C>M), TCC59YCY (1159T>Y 1161C>Y), GTT60ATT (1162G>A), ATT61ATY (1167T>Y), TTG62TTR (1170G>R), CAG63YAG (1171C>Y), GTT64GTY (1176T>Y), AAG65AAA (1179G>A), ACA66G.. (1180A>G), AAG67..A (1185G>A), GTA68..G (1188A>G), GAT70A.. (1192G>A), GCC479GCT (2421C>T), ACT482ACA (2430T>A), AAA484AAC (2436A>C), AGG485GGA (2437A>G 2439G>A), GCA486ACA (2440G>A), ACA492ACG (2460A>G), AGA493AAG (2462G>A 2463A>G), CCT496CCC (2472T>C), GAT499GGA (2480A>G 2481T>A), AAG500AAA (2484G>A)
296835.7%134.0%40 (100%)23 (57.5%)0/0/9/00
Protein mutations:R34K (1084C>A 1085G>A), W35F (1088G>T 1089G>T), F38Y (1097T>A), S40M (1102T>A 1103C>T), T45N (1118C>A), R52Q (1139G>A 1140G>A), V60I (1162G>A)
Codon mutations:GGA33GGG (1083A>G), CGA34AAA (1084C>A 1085G>A), TGG35TTT (1088G>T 1089G>T), CAA36CAG (1092A>G), TTC38TAC (1097T>A), TCG40ATG (1102T>A 1103C>T), TCC41TCA (1107C>A), GAG42GAA (1110G>A), CCC44CCA (1116C>A), ACC45AAC (1118C>A), CTT46YTY (1120C>Y 1122T>Y), CAT47SAY (1123C>S 1125T>Y), GTC48GTR (1128C>R), GGG49GRR (1130G>R 1131G>R), CGG52CAA (1139G>A 1140G>A), GAC53GAM (1143C>M), ACT55ACW (1149T>W), TTT56TTY (1152T>Y), GAC57SAC (1153G>S), CTC58CTM (1158C>M), TCC59YCY (1159T>Y 1161C>Y), GTT60ATT (1162G>A), ATT61ATY (1167T>Y), TTG62TTR (1170G>R), CAG63YAG (1171C>Y), GTT64GTY (1176T>Y), AAG65AAA (1179G>A), ACA66G.. (1180A>G), AAG67..A (1185G>A), GTA68..G (1188A>G), GAT70A.. (1192G>A)
2502510.8%10100%2 (100%)2 (100%)0/0/0/00
Protein mutations:none
Codon mutations:none
12547.2%11272.7%25 (100%)19 (76.0%)0/0/0/00
Protein mutations:K7N (2436A>C), R8G (2437A>G 2439G>A), A9T (2440G>A), R16K (2462G>A 2463A>G), D22G (2480A>G 2481T>A)
Codon mutations:GCC2GCT (2421C>T), ACT5ACA (2430T>A), AAA7AAC (2436A>C), AGG8GGA (2437A>G 2439G>A), GCA9ACA (2440G>A), ACA15ACG (2460A>G), AGA16AAG (2462G>A 2463A>G), CCT19CCC (2472T>C), GAT22GGA (2480A>G 2481T>A), AAG23AAA (2484G>A)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43