Version 2.16.3
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Shigella phage SfII

Assembly

3665 (13 contig(s))
7.4
269
17.36 rpm (after QC)
2
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Shigella phage SfII (Taxonomy ID: 66284)
92.3391
90.9902
4
58

Alignment

6210.0 (NT) + 6802.0 (AA) = 13012.0
88.0796
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT48403518.8%621084.7%3665 (99.9%)3387 (92.3%)3/0
Mutations:273G>A, 1242T>C, 1264T>C, 1265G>A, 1834T>C, 1858C>A, 1892A>G, 1921A>G, 1948A>G, 2228C>A, 2288C>Y, 2295A>R, 2332T>C, 8620A>G, 9899A>T, 10226A>T, 10229T>G, 10292C>T, 10313C>T, 10319T>C, 10326A>C, 10358A>T, 10448G>T, 10451T>C, 10514T>C, 10523T>C, 10649T>C, 10710A>T, 10712C>A, 10713G>T, 10714T>C, 10718G>C, 10722G>A, 10723A>C, 10724T>G, 10726A>T, 10757T>C, 10760A>C, 10790T>C, 10811T>C, 10820T>C, 10871A>G, 10943A>T, 11030T>C, 11063C>T, 20439T>C, 20442C>A, 20445G>T, 20446C>T, 20458C>A, 20459C>A, 20465G>A, 20466C>G, 20469G>C, 20473G>A, 20487C>T, 20493C>T, 20500T>C, 20502G>C, 20509A>G, 20511A>G, 20512C>T, 20513G>C, 20514A>T, 20521A>C, 20523T>C, 20526T>C, 20532T>C, 20538A>T, 20543A>G, 20547T>C, 20552C>T, 20553A>T, 20560A>C, 20565A>G, 20567A>G, 20568T>C, 20571A>G, 20577G>A, 20578T>C, 20579G>T, 20586T>C, 20592T>C, 20604C>T, 20607T>A, 20613T>C, 20615T>C, 20622A>G, 20628T>C, 20631C>A, 20634T>C, 20637T>C, 20646C>G, 20647C>A, 20649C>T, 20653G>T, 20655C>T, 20658T>A, 20660G>A, 20661C>T, 20664T>G, 20667C>T, 20670C>A, 20671C>T, 20674A>C, 20680C>T, 20681A>G, 20683G>A, 20685C>A, 20686T>G, 20688C>T, 20691G>T, 20694A>G, 20695A>G, 20701A>C, 20703T>G, 20703_20704insCAA, 20706C>T, 20708A>C, 20709G>A, 20710G>A, 20711C>A, 20713G>A, 20715G>A, 20716G>C, 20718A>G, 20719A>C, 20720T>A, 20721C>A, 20724T>C, 20730G>T, 20731G>A, 20734G>A, 20736G>T, 20744G>A, 20745G>A, 20748C>G, 20749A>G, 20751T>A, 20752T>A, 20753C>A, 20754T>C, 20757C>A, 20758C>A, 20759G>A, 20760G>A, 20761A>G, 20763T>A, 20764C>A, 20766T>G, 20769T>A, 20770G>A, 20772T>C, 20775T>C, 20778T>C, 20781T>G, 20787T>A, 20790T>G, 20793T>C, 20796A>G, 20798G>A, 20802A>C, 20808C>T, 20811T>G, 20814T>C, 20817C>A, 20825A>T, 20826G>C, 20829A>C, 20844T>C, 20847T>G, 20937C>T, 20942A>G, 20944A>C, 20949A>G, 20952C>G, 20955G>T, 20956G>T, 20962A>G, 20963A>C, 20964A>G, 20965A>G, 20968C>T, 20969G>A, 20971T>G, 20973G>C, 20975A>G, 20976G>T, 20979T>C, 20982A>T, 20985A>T, 20995C>T, 20997T>G, 20998T>C, 21000T>C, 21004C>A, 21006T>A, 21007T>G, 21008C>A, 21009A>G, 21012T>G, 21019A>C, 21021A>G, 21023A>G, 21026G>A, 21027C>T, 21029G>A, 21030G>A, 21034G>T, 21036C>G, 21037A>C, 21039A>T, 21040G>T, 21042G>T, 21043A>G, 21045G>T, 21046C>A, 21047C>T, 21048G>A, 21050G>C, 21052T>A, 21053T>G, 21058A>T, 21061A>C, 21062C>A, 21064G>A, 21065A>T, 21072A>T, 21073C>G, 21074A>C, 21075A>C, 21077A>G, 21078A>G, 21079G>T, 21081C>G, 21084A>G, 21086G>C, 21087C>A, 21089G>A, 21113A>G, 21114T>C, 21119C>A, 21123G>C, 21129T>A, 21130G>C, 21132C>G, 21133A>C, 21134A>G, 21136A>G, 21147A>G, 21148C>T, 21150G>A, 21156T>C, 21158G>A, 21159A>C, 21160A>C, 21166C>T, 21171A>T, 21180C>A, 21183T>A, 21184C>A, 21201A>G, 21204C>T, 21210T>G, 21213T>C, 21216C>T, 30485A>G, 30538G>A, 39833T>C, 39836C>T, 39848A>G, 39925C>T, 39927A>C, 39938G>A, 39943T>C, 39946C>T, 39949T>C, 39950A>C, 39951G>A
CDS
15231.5%36298.9%52 (100%)51 (98.1%)0/0/0/00
Protein mutations:E50K (273G>A)
Codon mutations:GAA50AAA (273G>A)
14857835.1%132994.5%203 (100%)195 (96.1%)0/0/1/00
Protein mutations:V209A (1242T>C), A217T (1265G>A), M426V (1892A>G), Q538K (2228C>A)
Codon mutations:GTG209GCG (1242T>C), CAT216CAC (1264T>C), GCC217ACC (1265G>A), TAT406TAC (1834T>C), CGC414CGA (1858C>A), ATG426GTG (1892A>G), GCA435GCG (1921A>G), GAA444GAG (1948A>G), CAG538AAG (2228C>A), CTG558YTG (2288C>Y), GAG560GRG (2295A>R), TAT572TAC (2332T>C)
1771875.9%8293.2%11 (100%)11 (100%)0/0/0/01
15087.7%355100%50 (100%)50 (100%)0/0/0/00
2292728.8%28896.0%44 (100%)43 (97.7%)0/0/0/00
689025.6%153100%23 (100%)23 (100%)0/0/0/01
140866.0%243998.0%404 (100%)397 (98.3%)0/0/0/01
Protein mutations:S83R (10326A>C), S211* (10710A>T 10712C>A), V212S (10713G>T 10714T>C), M213I (10718G>C), D215T (10722G>A 10723A>C 10724T>G), Q216L (10726A>T)
Codon mutations:GCA49GCT (10226A>T), GCT50GCG (10229T>G), GTC71GTT (10292C>T), GGC78GGT (10313C>T), GTT80GTC (10319T>C), AGC83CGC (10326A>C), GGA93GGT (10358A>T), CTG123CTT (10448G>T), GGT124GGC (10451T>C), GCT145GCC (10514T>C), GCT148GCC (10523T>C), AGT190AGC (10649T>C), AGC211TGA (10710A>T 10712C>A), GTC212TCC (10713G>T 10714T>C), ATG213ATC (10718G>C), GAT215ACG (10722G>A 10723A>C 10724T>G), CAG216CTG (10726A>T), AAT226AAC (10757T>C), GCA227GCC (10760A>C), AGT237AGC (10790T>C), GTT244GTC (10811T>C), GTT247GTC (10820T>C), GGA264GGG (10871A>G), ACA288ACT (10943A>T), GAT317GAC (11030T>C), AGC328AGT (11063C>T)
4230459.2%114268.3%235 (99.6%)156 (66.1%)1/0/0/01
Protein mutations:H47Y (20446C>T), P51N (20458C>A 20459C>A), R53Q (20465G>A 20466C>G), D56N (20473G>A), K68E (20509A>G 20511A>G), R69S (20512C>T 20513G>C 20514A>T), N72H (20521A>C 20523T>C), K79R (20543A>G), T82I (20552C>T 20553A>T), M85L (20560A>C), N87S (20567A>G 20568T>C), W91L (20578T>C 20579G>T), F103S (20615T>C), L114I (20647C>A 20649C>T), D116Y (20653G>T 20655C>T), R118H (20660G>A 20661C>T), M123L (20674A>C), Q125W (20680C>T 20681A>G), V126I (20683G>A 20685C>A), F127V (20686T>G 20688C>T), K130E (20695A>G), N132Q (20701A>C 20703T>G), N132_N133insQ (20703_20704insCAA), E134A (20708A>C 20709G>A), A135K (20710G>A 20711C>A), V136I (20713G>A 20715G>A), E137Q (20716G>C 20718A>G), I138Q (20719A>C 20720T>A 20721C>A), D142N (20731G>A), A143T (20734G>A 20736G>T), G146E (20744G>A 20745G>A), I148V (20749A>G 20751T>A), S149N (20752T>A 20753C>A 20754T>C), R151K (20758C>A 20759G>A 20760G>A), T152A (20761A>G 20763T>A), V155I (20770G>A 20772T>C), S164N (20798G>A), Q173L (20825A>T 20826G>C), E212G (20942A>G), T213P (20944A>C), A217S (20956G>T), K219A (20962A>G 20963A>C 20964A>G), K220E (20965A>G), R221Y (20968C>T 20969G>A), S222A (20971T>G 20973G>C), Q223R (20975A>G 20976G>T), E225D (20982A>T), Y231H (20998T>C 21000T>C), H233K (21004C>A 21006T>A), S234E (21007T>G 21008C>A 21009A>G), K239R (21023A>G), S240N (21026G>A 21027C>T), R241K (21029G>A 21030G>A), A243S (21034G>T 21036C>G), G245C (21040G>T 21042G>T), R246G (21043A>G 21045G>T), P247I (21046C>A 21047C>T 21048G>A), G248A (21050G>C), L249R (21052T>A 21053T>G), T251S (21058A>T), T252Q (21061A>C 21062C>A), E253I (21064G>A 21065A>T), E255D (21072A>T), Q256A (21073C>G 21074A>C 21075A>C), K257R (21077A>G 21078A>G), A258S (21079G>T 21081C>G), G260A (21086G>C 21087C>A), R261K (21089G>A), N269S (21113A>G 21114T>C), A271D (21119C>A), E272D (21123G>C), N274K (21129T>A), A275P (21130G>C 21132C>G), K276R (21133A>C 21134A>G), K277E (21136A>G), R284H (21158G>A 21159A>C), Q287* (21166C>T), N291K (21180C>A), F292L (21183T>A)
Codon mutations:ATT44ATC (20439T>C), GGC45GGA (20442C>A), CGG46CGT (20445G>T), CAT47TAT (20446C>T), CCT51AAT (20458C>A 20459C>A), CGC53CAG (20465G>A 20466C>G), GTG54GTC (20469G>C), GAT56AAT (20473G>A), CGC60CGT (20487C>T), GAC62GAT (20493C>T), TTG65CTC (20500T>C 20502G>C), AAA68GAG (20509A>G 20511A>G), CGA69TCT (20512C>T 20513G>C 20514A>T), AAT72CAC (20521A>C 20523T>C), GAT73GAC (20526T>C), CCT75CCC (20532T>C), ATA77ATT (20538A>T), AAA79AGA (20543A>G), AAT80AAC (20547T>C), ACA82ATT (20552C>T 20553A>T), ATG85CTG (20560A>C), ACA86ACG (20565A>G), AAT87AGC (20567A>G 20568T>C), AAA88AAG (20571A>G), TCG90TCA (20577G>A), TGG91CTG (20578T>C 20579G>T), GTT93GTC (20586T>C), GCT95GCC (20592T>C), AGC99AGT (20604C>T), GGT100GGA (20607T>A), CCT102CCC (20613T>C), TTT103TCT (20615T>C), GAA105GAG (20622A>G), CAT107CAC (20628T>C), GTC108GTA (20631C>A), CTT109CTC (20634T>C), CGT110CGC (20637T>C), CTC113CTG (20646C>G), CTC114ATT (20647C>A 20649C>T), GAC116TAT (20653G>T 20655C>T), GGT117GGA (20658T>A), CGC118CAT (20660G>A 20661C>T), TCT119TCG (20664T>G), ATC120ATT (20667C>T), CCC121CCA (20670C>A), CTG122TTG (20671C>T), ATG123CTG (20674A>C), CAG125TGG (20680C>T 20681A>G), GTC126ATA (20683G>A 20685C>A), TTC127GTT (20686T>G 20688C>T), CCG128CCT (20691G>T), TCA129TCG (20694A>G), AAA130GAA (20695A>G), AAT132CAG (20701A>C 20703T>G), AAT132_AAC133insCAA (20703_20704insCAA), AAC133AAT (20706C>T), GAG134GCA (20708A>C 20709G>A), GCG135AAG (20710G>A 20711C>A), GTG136ATA (20713G>A 20715G>A), GAA137CAG (20716G>C 20718A>G), ATC138CAA (20719A>C 20720T>A 20721C>A), GCT139GCC (20724T>C), CTG141CTT (20730G>T), GAT142AAT (20731G>A), GCG143ACT (20734G>A 20736G>T), GGG146GAA (20744G>A 20745G>A), GCC147GCG (20748C>G), ATT148GTA (20749A>G 20751T>A), TCT149AAC (20752T>A 20753C>A 20754T>C), CCC150CCA (20757C>A), CGG151AAA (20758C>A 20759G>A 20760G>A), ACT152GCA (20761A>G 20763T>A), CGT153AGG (20764C>A 20766T>G), GTT154GTA (20769T>A), GTT155ATC (20770G>A 20772T>C), ATT156ATC (20775T>C), GTT157GTC (20778T>C), ACT158ACG (20781T>G), GCT160GCA (20787T>A), GGT161GGG (20790T>G), TTT162TTC (20793T>C), CAA163CAG (20796A>G), AGT164AAT (20798G>A), GCA165GCC (20802A>C), TTC167TTT (20808C>T), CGT168CGG (20811T>G), CAT169CAC (20814T>C), ATC170ATA (20817C>A), CAG173CTC (20825A>T 20826G>C), GGA174GGC (20829A>C), GGT179GGC (20844T>C), CGT180CGG (20847T>G), TAC210TAT (20937C>T), GAG212GGG (20942A>G), ACG213CCG (20944A>C), GGA214GGG (20949A>G), ACC215ACG (20952C>G), CTG216CTT (20955G>T), GCC217TCC (20956G>T), AAA219GCG (20962A>G 20963A>C 20964A>G), AAA220GAA (20965A>G), CGC221TAC (20968C>T 20969G>A), TCG222GCC (20971T>G 20973G>C), CAG223CGT (20975A>G 20976G>T), TGT224TGC (20979T>C), GAA225GAT (20982A>T), GGA226GGT (20985A>T), CTT230TTG (20995C>T 20997T>G), TAT231CAC (20998T>C 21000T>C), CAT233AAA (21004C>A 21006T>A), TCA234GAG (21007T>G 21008C>A 21009A>G), CCT235CCG (21012T>G), AGA238CGG (21019A>C 21021A>G), AAA239AGA (21023A>G), AGC240AAT (21026G>A 21027C>T), AGG241AAA (21029G>A 21030G>A), GCC243TCG (21034G>T 21036C>G), AGA244CGT (21037A>C 21039A>T), GGG245TGT (21040G>T 21042G>T), AGG246GGT (21043A>G 21045G>T), CCG247ATA (21046C>A 21047C>T 21048G>A), GGC248GCC (21050G>C), TTA249AGA (21052T>A 21053T>G), ACA251TCA (21058A>T), ACG252CAG (21061A>C 21062C>A), GAA253ATA (21064G>A 21065A>T), GAA255GAT (21072A>T), CAA256GCC (21073C>G 21074A>C 21075A>C), AAA257AGG (21077A>G 21078A>G), GCC258TCG (21079G>T 21081C>G), GCA259GCG (21084A>G), GGC260GCA (21086G>C 21087C>A), AGA261AAA (21089G>A), AAT269AGC (21113A>G 21114T>C), GCT271GAT (21119C>A), GAG272GAC (21123G>C), AAT274AAA (21129T>A), GCC275CCG (21130G>C 21132C>G), AAA276CGA (21133A>C 21134A>G), AAA277GAA (21136A>G), AAA280AAG (21147A>G), CTG281TTA (21148C>T 21150G>A), AGT283AGC (21156T>C), CGA284CAC (21158G>A 21159A>C), AGA285CGA (21160A>C), CAG287TAG (21166C>T), ATA288ATT (21171A>T), AAC291AAA (21180C>A), TTT292TTA (21183T>A), CGG293AGG (21184C>A), GAA298GAG (21201A>G), CGC299CGT (21204C>T), GGT301GGG (21210T>G), TTT302TTC (21213T>C), GGC303GGT (21216C>T)
488533.6%25691.4%38 (100%)37 (97.4%)0/0/0/00
Protein mutations:S82N (30538G>A)
Codon mutations:TTA64TTG (30485A>G), AGC82AAC (30538G>A)
64217.7%25483.8%37 (100%)34 (91.9%)0/0/0/00
Protein mutations:F8C (39927A>C), G9R (39925C>T)
Codon mutations:ATG1G.. (39949T>C), GTC2A.. (39946C>T), ACA3G.. (39943T>C), CTC4..T (39938G>A), TTC8TGC (39927A>C), GGG9AGG (39925C>T), AGT34AGC (39848A>G), GAG38GAA (39836C>T), CTA39CTG (39833T>C)
12322.8%142100%23 (100%)23 (100%)0/0/0/00
Proteins
15231.5%36298.9%52 (100%)51 (98.1%)0/0/0/00
Protein mutations:E50K (273G>A)
Codon mutations:GAA50AAA (273G>A)
14857835.1%132994.5%203 (100%)195 (96.1%)0/0/1/00
Protein mutations:V209A (1242T>C), A217T (1265G>A), M426V (1892A>G), Q538K (2228C>A)
Codon mutations:GTG209GCG (1242T>C), CAT216CAC (1264T>C), GCC217ACC (1265G>A), TAT406TAC (1834T>C), CGC414CGA (1858C>A), ATG426GTG (1892A>G), GCA435GCG (1921A>G), GAA444GAG (1948A>G), CAG538AAG (2228C>A), CTG558YTG (2288C>Y), GAG560GRG (2295A>R), TAT572TAC (2332T>C)
1771875.9%8293.2%11 (100%)11 (100%)0/0/0/01
Protein mutations:none
Codon mutations:none
15087.7%355100%50 (100%)50 (100%)0/0/0/00
Protein mutations:none
Codon mutations:none
2292728.8%28896.0%44 (100%)43 (97.7%)0/0/0/00
Protein mutations:none
Codon mutations:ACA268ACG (8620A>G)
689025.6%153100%23 (100%)23 (100%)0/0/0/01
Protein mutations:none
Codon mutations:GCA77GCT (9899A>T)
140866.0%243998.0%404 (100%)397 (98.3%)0/0/0/01
Protein mutations:S83R (10326A>C), S211* (10710A>T 10712C>A), V212S (10713G>T 10714T>C), M213I (10718G>C), D215T (10722G>A 10723A>C 10724T>G), Q216L (10726A>T)
Codon mutations:GCA49GCT (10226A>T), GCT50GCG (10229T>G), GTC71GTT (10292C>T), GGC78GGT (10313C>T), GTT80GTC (10319T>C), AGC83CGC (10326A>C), GGA93GGT (10358A>T), CTG123CTT (10448G>T), GGT124GGC (10451T>C), GCT145GCC (10514T>C), GCT148GCC (10523T>C), AGT190AGC (10649T>C), AGC211TGA (10710A>T 10712C>A), GTC212TCC (10713G>T 10714T>C), ATG213ATC (10718G>C), GAT215ACG (10722G>A 10723A>C 10724T>G), CAG216CTG (10726A>T), AAT226AAC (10757T>C), GCA227GCC (10760A>C), AGT237AGC (10790T>C), GTT244GTC (10811T>C), GTT247GTC (10820T>C), GGA264GGG (10871A>G), ACA288ACT (10943A>T), GAT317GAC (11030T>C), AGC328AGT (11063C>T)
4230459.2%114268.3%235 (99.6%)156 (66.1%)1/0/0/01
Protein mutations:H47Y (20446C>T), P51N (20458C>A 20459C>A), R53Q (20465G>A 20466C>G), D56N (20473G>A), K68E (20509A>G 20511A>G), R69S (20512C>T 20513G>C 20514A>T), N72H (20521A>C 20523T>C), K79R (20543A>G), T82I (20552C>T 20553A>T), M85L (20560A>C), N87S (20567A>G 20568T>C), W91L (20578T>C 20579G>T), F103S (20615T>C), L114I (20647C>A 20649C>T), D116Y (20653G>T 20655C>T), R118H (20660G>A 20661C>T), M123L (20674A>C), Q125W (20680C>T 20681A>G), V126I (20683G>A 20685C>A), F127V (20686T>G 20688C>T), K130E (20695A>G), N132Q (20701A>C 20703T>G), N132_N133insQ (20703_20704insCAA), E134A (20708A>C 20709G>A), A135K (20710G>A 20711C>A), V136I (20713G>A 20715G>A), E137Q (20716G>C 20718A>G), I138Q (20719A>C 20720T>A 20721C>A), D142N (20731G>A), A143T (20734G>A 20736G>T), G146E (20744G>A 20745G>A), I148V (20749A>G 20751T>A), S149N (20752T>A 20753C>A 20754T>C), R151K (20758C>A 20759G>A 20760G>A), T152A (20761A>G 20763T>A), V155I (20770G>A 20772T>C), S164N (20798G>A), Q173L (20825A>T 20826G>C), E212G (20942A>G), T213P (20944A>C), A217S (20956G>T), K219A (20962A>G 20963A>C 20964A>G), K220E (20965A>G), R221Y (20968C>T 20969G>A), S222A (20971T>G 20973G>C), Q223R (20975A>G 20976G>T), E225D (20982A>T), Y231H (20998T>C 21000T>C), H233K (21004C>A 21006T>A), S234E (21007T>G 21008C>A 21009A>G), K239R (21023A>G), S240N (21026G>A 21027C>T), R241K (21029G>A 21030G>A), A243S (21034G>T 21036C>G), G245C (21040G>T 21042G>T), R246G (21043A>G 21045G>T), P247I (21046C>A 21047C>T 21048G>A), G248A (21050G>C), L249R (21052T>A 21053T>G), T251S (21058A>T), T252Q (21061A>C 21062C>A), E253I (21064G>A 21065A>T), E255D (21072A>T), Q256A (21073C>G 21074A>C 21075A>C), K257R (21077A>G 21078A>G), A258S (21079G>T 21081C>G), G260A (21086G>C 21087C>A), R261K (21089G>A), N269S (21113A>G 21114T>C), A271D (21119C>A), E272D (21123G>C), N274K (21129T>A), A275P (21130G>C 21132C>G), K276R (21133A>C 21134A>G), K277E (21136A>G), R284H (21158G>A 21159A>C), Q287* (21166C>T), N291K (21180C>A), F292L (21183T>A)
Codon mutations:ATT44ATC (20439T>C), GGC45GGA (20442C>A), CGG46CGT (20445G>T), CAT47TAT (20446C>T), CCT51AAT (20458C>A 20459C>A), CGC53CAG (20465G>A 20466C>G), GTG54GTC (20469G>C), GAT56AAT (20473G>A), CGC60CGT (20487C>T), GAC62GAT (20493C>T), TTG65CTC (20500T>C 20502G>C), AAA68GAG (20509A>G 20511A>G), CGA69TCT (20512C>T 20513G>C 20514A>T), AAT72CAC (20521A>C 20523T>C), GAT73GAC (20526T>C), CCT75CCC (20532T>C), ATA77ATT (20538A>T), AAA79AGA (20543A>G), AAT80AAC (20547T>C), ACA82ATT (20552C>T 20553A>T), ATG85CTG (20560A>C), ACA86ACG (20565A>G), AAT87AGC (20567A>G 20568T>C), AAA88AAG (20571A>G), TCG90TCA (20577G>A), TGG91CTG (20578T>C 20579G>T), GTT93GTC (20586T>C), GCT95GCC (20592T>C), AGC99AGT (20604C>T), GGT100GGA (20607T>A), CCT102CCC (20613T>C), TTT103TCT (20615T>C), GAA105GAG (20622A>G), CAT107CAC (20628T>C), GTC108GTA (20631C>A), CTT109CTC (20634T>C), CGT110CGC (20637T>C), CTC113CTG (20646C>G), CTC114ATT (20647C>A 20649C>T), GAC116TAT (20653G>T 20655C>T), GGT117GGA (20658T>A), CGC118CAT (20660G>A 20661C>T), TCT119TCG (20664T>G), ATC120ATT (20667C>T), CCC121CCA (20670C>A), CTG122TTG (20671C>T), ATG123CTG (20674A>C), CAG125TGG (20680C>T 20681A>G), GTC126ATA (20683G>A 20685C>A), TTC127GTT (20686T>G 20688C>T), CCG128CCT (20691G>T), TCA129TCG (20694A>G), AAA130GAA (20695A>G), AAT132CAG (20701A>C 20703T>G), AAT132_AAC133insCAA (20703_20704insCAA), AAC133AAT (20706C>T), GAG134GCA (20708A>C 20709G>A), GCG135AAG (20710G>A 20711C>A), GTG136ATA (20713G>A 20715G>A), GAA137CAG (20716G>C 20718A>G), ATC138CAA (20719A>C 20720T>A 20721C>A), GCT139GCC (20724T>C), CTG141CTT (20730G>T), GAT142AAT (20731G>A), GCG143ACT (20734G>A 20736G>T), GGG146GAA (20744G>A 20745G>A), GCC147GCG (20748C>G), ATT148GTA (20749A>G 20751T>A), TCT149AAC (20752T>A 20753C>A 20754T>C), CCC150CCA (20757C>A), CGG151AAA (20758C>A 20759G>A 20760G>A), ACT152GCA (20761A>G 20763T>A), CGT153AGG (20764C>A 20766T>G), GTT154GTA (20769T>A), GTT155ATC (20770G>A 20772T>C), ATT156ATC (20775T>C), GTT157GTC (20778T>C), ACT158ACG (20781T>G), GCT160GCA (20787T>A), GGT161GGG (20790T>G), TTT162TTC (20793T>C), CAA163CAG (20796A>G), AGT164AAT (20798G>A), GCA165GCC (20802A>C), TTC167TTT (20808C>T), CGT168CGG (20811T>G), CAT169CAC (20814T>C), ATC170ATA (20817C>A), CAG173CTC (20825A>T 20826G>C), GGA174GGC (20829A>C), GGT179GGC (20844T>C), CGT180CGG (20847T>G), TAC210TAT (20937C>T), GAG212GGG (20942A>G), ACG213CCG (20944A>C), GGA214GGG (20949A>G), ACC215ACG (20952C>G), CTG216CTT (20955G>T), GCC217TCC (20956G>T), AAA219GCG (20962A>G 20963A>C 20964A>G), AAA220GAA (20965A>G), CGC221TAC (20968C>T 20969G>A), TCG222GCC (20971T>G 20973G>C), CAG223CGT (20975A>G 20976G>T), TGT224TGC (20979T>C), GAA225GAT (20982A>T), GGA226GGT (20985A>T), CTT230TTG (20995C>T 20997T>G), TAT231CAC (20998T>C 21000T>C), CAT233AAA (21004C>A 21006T>A), TCA234GAG (21007T>G 21008C>A 21009A>G), CCT235CCG (21012T>G), AGA238CGG (21019A>C 21021A>G), AAA239AGA (21023A>G), AGC240AAT (21026G>A 21027C>T), AGG241AAA (21029G>A 21030G>A), GCC243TCG (21034G>T 21036C>G), AGA244CGT (21037A>C 21039A>T), GGG245TGT (21040G>T 21042G>T), AGG246GGT (21043A>G 21045G>T), CCG247ATA (21046C>A 21047C>T 21048G>A), GGC248GCC (21050G>C), TTA249AGA (21052T>A 21053T>G), ACA251TCA (21058A>T), ACG252CAG (21061A>C 21062C>A), GAA253ATA (21064G>A 21065A>T), GAA255GAT (21072A>T), CAA256GCC (21073C>G 21074A>C 21075A>C), AAA257AGG (21077A>G 21078A>G), GCC258TCG (21079G>T 21081C>G), GCA259GCG (21084A>G), GGC260GCA (21086G>C 21087C>A), AGA261AAA (21089G>A), AAT269AGC (21113A>G 21114T>C), GCT271GAT (21119C>A), GAG272GAC (21123G>C), AAT274AAA (21129T>A), GCC275CCG (21130G>C 21132C>G), AAA276CGA (21133A>C 21134A>G), AAA277GAA (21136A>G), AAA280AAG (21147A>G), CTG281TTA (21148C>T 21150G>A), AGT283AGC (21156T>C), CGA284CAC (21158G>A 21159A>C), AGA285CGA (21160A>C), CAG287TAG (21166C>T), ATA288ATT (21171A>T), AAC291AAA (21180C>A), TTT292TTA (21183T>A), CGG293AGG (21184C>A), GAA298GAG (21201A>G), CGC299CGT (21204C>T), GGT301GGG (21210T>G), TTT302TTC (21213T>C), GGC303GGT (21216C>T)
488533.6%25691.4%38 (100%)37 (97.4%)0/0/0/00
Protein mutations:S82N (30538G>A)
Codon mutations:TTA64TTG (30485A>G), AGC82AAC (30538G>A)
64217.7%25483.8%37 (100%)34 (91.9%)0/0/0/00
Protein mutations:F8C (39927A>C), G9R (39925C>T)
Codon mutations:ATG1G.. (39949T>C), GTC2A.. (39946C>T), ACA3G.. (39943T>C), CTC4..T (39938G>A), TTC8TGC (39927A>C), GGG9AGG (39925C>T), AGT34AGC (39848A>G), GAG38GAA (39836C>T), CTA39CTG (39833T>C)
12322.8%142100%23 (100%)23 (100%)0/0/0/00
Protein mutations:none
Codon mutations:none
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43