Run ID: ERR176631
Sample name:
Date: 31-03-2023 15:07:53
Number of reads: 3572273
Percentage reads mapped: 84.63
Strain: lineage4;lineage1.1.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.06 |
lineage1 | Indo-Oceanic | EAI | RD239 | 0.94 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.95 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 0.95 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 0.96 |
gyrB | 6124 | c.885C>T | synonymous_variant | 0.96 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.92 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.92 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.94 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.99 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.96 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.96 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 0.94 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.92 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472112 | n.267C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472582 | n.737G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474798 | n.1141C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474804 | n.1147C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476573 | n.2916A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476577 | n.2920T>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476624 | n.2967T>G | non_coding_transcript_exon_variant | 0.11 |
fabG1 | 1673283 | c.-157A>C | upstream_gene_variant | 0.91 |
tlyA | 1917777 | c.-163A>G | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918106 | p.Thr56Ile | missense_variant | 0.94 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.98 |
katG | 2155557 | c.555C>T | synonymous_variant | 0.96 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.92 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 0.92 |
PPE35 | 2170378 | p.Ala79Thr | missense_variant | 0.93 |
Rv1979c | 2221783 | p.Ala461Glu | missense_variant | 0.97 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.9 |
eis | 2714199 | p.Lys378Asn | missense_variant | 0.91 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.94 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.25 |
ahpC | 2726672 | c.480G>A | synonymous_variant | 0.97 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448442 | c.-62A>C | upstream_gene_variant | 0.95 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.97 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.92 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.99 |
Rv3236c | 3613012 | c.105G>A | synonymous_variant | 0.94 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.3 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.25 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.92 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.27 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.92 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.99 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 0.99 |
embA | 4245166 | p.Pro645Gln | missense_variant | 0.97 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.96 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.89 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.91 |
aftB | 4269411 | c.-575T>C | upstream_gene_variant | 0.11 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.96 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 0.97 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.95 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.93 |