Run ID: SRR12199480
Sample name:
Date: 03-04-2023 06:42:51
Number of reads: 2510483
Percentage reads mapped: 99.02
Strain: lineage1.1.1
Drug-resistance: Sensitive
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 | 0.97 |
lineage1.1.1 | Indo-Oceanic | EAI4;EAI5 | RD239 | 0.96 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 0.98 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.95 |
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 |
rpoB | 760386 | p.His194Tyr | missense_variant | 0.96 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.92 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.94 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 1.0 |
rpoC | 767229 | p.Ser1287Leu | missense_variant | 0.93 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 778116 | p.His122Arg | missense_variant | 0.96 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.98 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474709 | n.1052G>T | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1834319 | p.Val260Ile | 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 | 0.96 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.34 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.34 |
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 | 0.89 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.91 |
ahpC | 2726070 | c.-123G>A | upstream_gene_variant | 0.63 |
ribD | 2987401 | p.Arg188His | missense_variant | 0.7 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 0.94 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.91 |
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 | 0.73 |
fprA | 3475302 | c.1296C>T | synonymous_variant | 0.64 |
rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.95 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4244096 | c.864C>T | synonymous_variant | 0.95 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.97 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.21 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.21 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.21 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.98 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.29 |
ubiA | 4269152 | p.Ala228Ser | missense_variant | 0.79 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.49 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.77 |
ethA | 4327483 | c.-10G>A | upstream_gene_variant | 1.0 |
whiB6 | 4338242 | p.Gln94Glu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 0.98 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.93 |
eis | 2635446 | c.-8888_*78677del | transcript_ablation | 1.0 |
eis | 2641360 | c.-8890_*72763del | transcript_ablation | 1.0 |
fbiD | 3293701 | c.-45416_*15659del | transcript_ablation | 1.0 |