Run ID: ERR2229312
Sample name:
Date: 31-03-2023 16:59:33
Number of reads: 760708
Percentage reads mapped: 98.63
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5860 | c.621C>T | synonymous_variant | 0.15 |
gyrA | 7307 | c.6A>G | synonymous_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 8465 | c.1164C>T | synonymous_variant | 0.12 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.17 |
mshA | 576516 | p.Val390Gly | missense_variant | 0.17 |
ccsA | 620240 | p.Thr117Asn | missense_variant | 0.25 |
ccsA | 620599 | p.Phe237Leu | missense_variant | 0.33 |
rpoB | 759966 | p.Ser54Thr | missense_variant | 0.22 |
rpoB | 762176 | c.2370T>A | synonymous_variant | 0.12 |
rpoC | 762929 | c.-441G>A | upstream_gene_variant | 0.13 |
rpoC | 763571 | p.Val68Leu | missense_variant | 0.17 |
rpoC | 764969 | p.Ala534Ser | missense_variant | 0.22 |
rpoC | 766672 | p.Asp1101Glu | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775693 | p.Ala930Thr | missense_variant | 0.14 |
mmpL5 | 776852 | c.1629C>A | synonymous_variant | 0.18 |
mmpL5 | 777149 | p.Asn444Lys | missense_variant | 0.2 |
mmpL5 | 777157 | c.1324C>A | synonymous_variant | 0.22 |
mmpL5 | 777164 | c.1317C>T | synonymous_variant | 0.2 |
mmpL5 | 778201 | p.Val94Met | missense_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304220 | c.1290G>A | synonymous_variant | 0.13 |
Rv1258c | 1407487 | c.-147C>A | upstream_gene_variant | 0.14 |
Rv1258c | 1407540 | c.-200C>A | upstream_gene_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472536 | n.691G>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474489 | n.832T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474597 | n.940T>G | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.19 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.2 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.17 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.17 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.17 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.23 |
fabG1 | 1674120 | p.Glu227Asp | missense_variant | 0.17 |
inhA | 1674791 | p.Leu197Arg | missense_variant | 0.15 |
inhA | 1674793 | p.Ala198Ser | missense_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918310 | p.Asn124Ile | missense_variant | 0.15 |
tlyA | 1918445 | p.Gly169Glu | missense_variant | 0.13 |
ndh | 2102802 | p.Asn81Tyr | missense_variant | 0.12 |
katG | 2156224 | c.-113G>T | upstream_gene_variant | 0.12 |
PPE35 | 2167833 | p.Leu927Arg | missense_variant | 0.17 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.15 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.14 |
PPE35 | 2168129 | c.2484G>T | synonymous_variant | 0.14 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.17 |
PPE35 | 2169293 | c.1320T>C | synonymous_variant | 0.21 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.2 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.6 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.62 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289266 | c.-25A>G | upstream_gene_variant | 0.15 |
kasA | 2518119 | p.Ser2Asn | missense_variant | 0.14 |
eis | 2714961 | c.372C>T | synonymous_variant | 0.18 |
pepQ | 2859634 | p.Gln262Arg | missense_variant | 0.18 |
pepQ | 2860154 | p.Glu89Gln | missense_variant | 0.2 |
pepQ | 2860467 | c.-49G>A | upstream_gene_variant | 0.13 |
ribD | 2986921 | c.88delC | frameshift_variant | 0.5 |
ribD | 2987448 | p.Glu204* | stop_gained | 0.13 |
Rv2752c | 3064576 | p.Lys539Met | missense_variant | 0.22 |
Rv2752c | 3064727 | p.Ala489Ser | missense_variant | 0.22 |
Rv2752c | 3064971 | c.1221C>T | synonymous_variant | 0.22 |
fprA | 3474217 | p.Ala71Thr | missense_variant | 0.12 |
fprA | 3475224 | c.1218G>T | synonymous_variant | 0.13 |
whiB7 | 3568548 | c.132G>C | synonymous_variant | 0.22 |
Rv3236c | 3612202 | p.Lys305Asn | missense_variant | 0.13 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.31 |
clpC1 | 4038614 | c.2091C>T | synonymous_variant | 0.17 |
clpC1 | 4038675 | p.Val677Asp | missense_variant | 0.2 |
clpC1 | 4039018 | p.Ser563Ala | missense_variant | 0.17 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.15 |
clpC1 | 4039670 | c.1035G>T | synonymous_variant | 0.13 |
clpC1 | 4039829 | p.Leu292Ile | missense_variant | 0.25 |
embC | 4241995 | c.2133C>A | synonymous_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242984 | p.Arg1041Leu | missense_variant | 0.2 |
embA | 4245427 | p.Ser732Asn | missense_variant | 0.17 |
embA | 4245752 | p.Met840Ile | missense_variant | 0.33 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.25 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.5 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.5 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.29 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.13 |
embB | 4246834 | c.321G>A | synonymous_variant | 0.12 |
aftB | 4268596 | p.Tyr81His | missense_variant | 0.22 |
aftB | 4268697 | p.Pro47Gln | missense_variant | 0.15 |
ubiA | 4269352 | p.Ala161Asp | missense_variant | 0.14 |
ubiA | 4269756 | p.Trp26Cys | missense_variant | 0.22 |
ethA | 4326092 | p.Tyr461Phe | missense_variant | 0.22 |
ethA | 4327418 | p.Ala19Val | missense_variant | 1.0 |
ethR | 4327640 | p.Ala31Val | missense_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407607 | p.Pro199His | missense_variant | 0.15 |
gid | 4408388 | c.-186C>T | upstream_gene_variant | 0.15 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |