Run ID: SRR12199387
Sample name:
Date: 03-04-2023 06:36:53
Number of reads: 684278
Percentage reads mapped: 95.91
Strain: lineage1.1.3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.97 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.99 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.96 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.13 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8188 | p.Leu296Pro | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.97 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575439 | p.Ser31Phe | missense_variant | 1.0 |
ccsA | 619695 | c.-196G>A | upstream_gene_variant | 0.94 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 1.0 |
rpoC | 765230 | p.Ala621Thr | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801166 | p.Gly120Ser | missense_variant | 1.0 |
rplC | 801338 | p.Val177Ala | missense_variant | 0.93 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476135 | n.2478T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476195 | n.2538C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476196 | n.2539C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476204 | n.2547C>A | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476210 | n.2553G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476211 | n.2554G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476212 | n.2555T>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476214 | n.2557G>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476215 | n.2558C>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476227 | n.2570C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.4 |
inhA | 1674883 | p.Ile228Val | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.94 |
eis | 2715441 | c.-109C>T | upstream_gene_variant | 0.93 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.95 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
thyA | 3074132 | p.Ala114Thr | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.94 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fbiB | 3642173 | c.639G>A | synonymous_variant | 0.96 |
rpoA | 3878687 | c.-180A>C | upstream_gene_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.96 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.95 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.61 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.71 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407780 | c.423G>A | synonymous_variant | 0.83 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.94 |