Run ID: ERR216953
Sample name:
Date: 31-03-2023 15:56:46
Number of reads: 1003105
Percentage reads mapped: 47.78
Strain: lineage4.3.4.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490663 | c.-120C>T | upstream_gene_variant | 0.18 |
fgd1 | 490872 | c.90C>T | synonymous_variant | 0.12 |
mshA | 575594 | p.Gly83Ser | missense_variant | 0.29 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpS5 | 778524 | p.Ala128Thr | missense_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304159 | p.Val410Gly | missense_variant | 0.57 |
Rv1258c | 1406501 | c.840G>C | synonymous_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472129 | n.284G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472151 | n.306C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472708 | n.863T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472803 | n.958T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476353 | n.2696G>A | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476359 | n.2702C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.59 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.74 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476513 | n.2856G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476528 | n.2871A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476565 | n.2908G>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476566 | n.2909A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476577 | n.2920T>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476578 | n.2921C>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476592 | n.2935G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476605 | n.2948C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476608 | n.2951C>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476614 | n.2957A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476629 | n.2972C>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476637 | n.2980C>A | non_coding_transcript_exon_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917981 | c.42G>T | synonymous_variant | 0.17 |
katG | 2153933 | p.Ala727Ser | missense_variant | 0.17 |
PPE35 | 2170283 | c.330G>A | synonymous_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519364 | c.1250G>T | stop_lost&splice_region_variant | 0.15 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.37 |
folC | 2746607 | p.Ala331Asp | missense_variant | 0.17 |
folC | 2746831 | c.768G>A | synonymous_variant | 0.15 |
Rv2752c | 3066147 | c.45G>T | synonymous_variant | 0.12 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.32 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087183 | p.Thr122Ala | missense_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474292 | p.Arg96Cys | missense_variant | 0.12 |
whiB7 | 3568517 | p.Ala55Ser | missense_variant | 0.25 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
fbiB | 3641986 | p.Thr151Ile | missense_variant | 0.2 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
panD | 4044422 | c.-141C>T | upstream_gene_variant | 0.12 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.29 |
embC | 4241138 | p.Ala426Thr | missense_variant | 0.12 |
embC | 4241653 | c.1791C>T | synonymous_variant | 0.22 |
embC | 4242142 | p.Asp760Glu | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243036 | c.-197C>T | upstream_gene_variant | 0.15 |
embA | 4243595 | c.363G>A | synonymous_variant | 0.2 |
embA | 4243938 | p.Trp236Gly | missense_variant | 0.29 |
embB | 4246569 | p.Ala19Val | missense_variant | 0.25 |
embB | 4247251 | c.738C>T | synonymous_variant | 0.15 |
embB | 4247627 | p.Arg372Ser | missense_variant | 0.17 |
ubiA | 4269902 | c.-69G>T | upstream_gene_variant | 0.25 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407786 | c.417G>A | synonymous_variant | 0.2 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |