Run ID: SRR18213767
Sample name:
Date: 03-04-2023 19:28:28
Number of reads: 3477817
Percentage reads mapped: 99.15
Strain: lineage1.1.3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.99 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.99 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5195 | c.-45C>G | upstream_gene_variant | 1.0 |
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 | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490751 | c.-32T>G | upstream_gene_variant | 0.24 |
fgd1 | 491448 | c.666C>T | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.98 |
mshA | 576280 | c.933A>C | synonymous_variant | 0.98 |
mshA | 576675 | p.Arg443His | missense_variant | 1.0 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.15 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.98 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.98 |
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 |
mmpL5 | 777427 | p.Thr352Pro | missense_variant | 0.15 |
mmpL5 | 778099 | p.Asp128Asn | missense_variant | 0.99 |
mmpS5 | 778581 | p.Gly109Ser | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303016 | p.Val29Gly | missense_variant | 0.18 |
fbiC | 1304159 | p.Val410Gly | missense_variant | 0.27 |
fbiC | 1304166 | c.1236A>G | synonymous_variant | 0.14 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.99 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 0.99 |
inhA | 1673406 | c.-796C>T | upstream_gene_variant | 1.0 |
inhA | 1674082 | c.-120G>A | upstream_gene_variant | 1.0 |
inhA | 1674966 | c.765T>G | synonymous_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154556 | p.Arg519His | missense_variant | 0.99 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 0.98 |
PPE35 | 2170584 | p.Ile10Ser | missense_variant | 0.98 |
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 | 0.99 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.99 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.3 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.21 |
ahpC | 2726350 | p.Trp53Leu | missense_variant | 0.16 |
pepQ | 2859904 | p.Val172Gly | missense_variant | 0.19 |
ribD | 2987323 | p.Val162Gly | missense_variant | 0.31 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
thyX | 3068043 | c.-98A>G | upstream_gene_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.18 |
ald | 3086767 | c.-53A>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086853 | p.Asn12Asp | missense_variant | 1.0 |
fbiD | 3339153 | p.Leu12Phe | missense_variant | 0.21 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.99 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.18 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4239973 | c.111T>G | synonymous_variant | 0.16 |
embC | 4240153 | c.291G>A | synonymous_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
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 | 4245314 | c.2082G>C | synonymous_variant | 0.96 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247057 | p.Arg182Cys | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.98 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.97 |
whiB6 | 4338308 | c.213dupT | frameshift_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 0.99 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407780 | c.423G>A | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |