Run ID: SRR1183154
Sample name:
Date: 03-04-2023 05:08:25
Number of reads: 3076335
Percentage reads mapped: 97.56
Strain: lineage1.2.2;lineage1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 0.17 |
lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 0.79 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5075 | c.-165C>T | upstream_gene_variant | 0.8 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_variant | 0.24 |
gyrA | 7268 | c.-34C>T | upstream_gene_variant | 0.75 |
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 | 8668 | p.Ala456Val | missense_variant | 0.84 |
gyrA | 8791 | p.Arg497Gln | missense_variant | 0.24 |
gyrA | 9047 | c.1746C>T | synonymous_variant | 0.14 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9443 | c.2142G>A | synonymous_variant | 0.22 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575496 | p.Leu50Arg | missense_variant | 0.2 |
rpoB | 760490 | c.684C>T | synonymous_variant | 0.16 |
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 | 0.2 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776395 | p.Phe696Leu | missense_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304773 | p.Ala615Ser | missense_variant | 0.75 |
embR | 1416229 | p.Asp373Glu | missense_variant | 0.81 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.98 |
rrs | 1471659 | n.-187C>T | upstream_gene_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 | 0.25 |
PPE35 | 2168742 | p.Gly624Asp | missense_variant | 0.78 |
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 | 1.0 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 0.19 |
thyX | 3067422 | p.Leu175Gln | missense_variant | 0.2 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.98 |
Rv3083 | 3449150 | p.Tyr216Cys | missense_variant | 0.78 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
rpoA | 3878641 | c.-135delG | upstream_gene_variant | 0.21 |
ddn | 3987057 | p.Arg72Trp | missense_variant | 0.16 |
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 | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4267080 | p.Arg586Gln | missense_variant | 0.2 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326148 | c.1326G>T | synonymous_variant | 0.79 |
ethA | 4326439 | p.Asn345Lys | missense_variant | 0.82 |
whiB6 | 4338203 | p.Arg107Cys | missense_variant | 0.69 |
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 | 4407742 | p.Arg154Pro | missense_variant | 0.74 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |