Run ID: SRR11972381
Sample name:
Date: 03-04-2023 05:39:31
Number of reads: 837275
Percentage reads mapped: 99.42
Strain: lineage1.1.3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 0.35 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.24 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5436 | p.Asn66Ser | missense_variant | 0.41 |
gyrB | 6084 | p.Gly282Val | missense_variant | 0.33 |
gyrB | 6112 | p.Met291Ile | missense_variant | 0.4 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.37 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.37 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.53 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.36 |
fgd1 | 491334 | c.552C>T | synonymous_variant | 0.5 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.43 |
ccsA | 620238 | c.348G>T | synonymous_variant | 0.15 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.46 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.35 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.33 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 0.5 |
rpoC | 765230 | p.Ala621Thr | missense_variant | 0.48 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.25 |
mmpS5 | 779648 | c.-743C>T | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406150 | c.1191G>A | synonymous_variant | 0.8 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.27 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 0.69 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.23 |
ndh | 2102547 | p.Arg166Trp | missense_variant | 0.41 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.25 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.24 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 0.3 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.21 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.22 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.48 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.42 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.23 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 0.42 |
Rv2752c | 3065540 | p.Val218Leu | missense_variant | 0.57 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.33 |
ald | 3087865 | p.Ala349Val | missense_variant | 0.13 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473897 | c.-110A>T | upstream_gene_variant | 0.15 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.35 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.22 |
fbiA | 3641129 | p.Ala196Glu | missense_variant | 0.11 |
alr | 3840764 | c.657G>C | synonymous_variant | 0.67 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.24 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.57 |
embC | 4240868 | c.1007delA | frameshift_variant | 0.14 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 0.61 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.21 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.15 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.14 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.14 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.14 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.17 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.17 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.18 |
embB | 4249602 | p.Asp1030Gly | missense_variant | 0.31 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.36 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.29 |
ethA | 4328412 | c.-939G>A | upstream_gene_variant | 0.27 |
whiB6 | 4338243 | c.278delG | frameshift_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 0.24 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.21 |
gid | 4407780 | c.423G>A | synonymous_variant | 0.11 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.27 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |