Run ID: SRR6797423
Sample name:
Date: 04-04-2023 16:09:24
Number of reads: 1834952
Percentage reads mapped: 97.51
Strain: lineage1.1.3.1
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 | 1.0 |
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.99 |
lineage1.1.3.1 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 | 8452 | p.Ala384Val | missense_variant | 0.96 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.98 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
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 |
mmpL5 | 776912 | c.1569G>T | synonymous_variant | 1.0 |
mmpL5 | 777572 | c.909C>T | synonymous_variant | 0.94 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474184 | n.527C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474186 | n.529A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474187 | n.530T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474199 | n.542G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474252 | n.595T>A | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474275 | n.618T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.1 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.11 |
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 | 2222371 | p.Ala265Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.98 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.93 |
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 |
alr | 3841253 | c.168C>T | synonymous_variant | 1.0 |
alr | 3841277 | c.144C>T | synonymous_variant | 0.98 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4239691 | c.-172G>A | upstream_gene_variant | 0.98 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.97 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
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 | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethR | 4326613 | c.-936G>A | upstream_gene_variant | 1.0 |
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 |
whiB6 | 4338429 | c.-218_92del | frameshift_variant&start_lost | 1.0 |