Run ID: SRR19428582
Sample name:
Date: 03-04-2023 21:41:14
Number of reads: 840279
Percentage reads mapped: 99.33
Strain: lineage1.1.2
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 | 1.0 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5909 | p.Ser224Gly | missense_variant | 0.11 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_variant | 1.0 |
gyrB | 6737 | p.Thr500Ala | missense_variant | 0.11 |
gyrB | 6816 | p.Lys526Arg | missense_variant | 0.12 |
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 | 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 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
atpE | 1461117 | p.Gly25Ser | missense_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472107 | n.262A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472145 | n.300G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472238 | n.393G>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472392 | n.547C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472935 | n.1090G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473055 | n.1210C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1473581 | n.-77G>C | upstream_gene_variant | 0.15 |
rrl | 1475225 | n.1568A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475484 | n.1827A>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475587 | n.1930G>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475941 | n.2284G>T | non_coding_transcript_exon_variant | 0.18 |
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 |
PPE35 | 2168146 | p.Pro823Ala | missense_variant | 0.12 |
PPE35 | 2169194 | c.1419C>T | synonymous_variant | 0.22 |
PPE35 | 2169317 | p.Phe432Leu | missense_variant | 0.2 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222892 | c.273C>A | synonymous_variant | 0.15 |
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 | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339741 | c.624G>A | synonymous_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3474700 | p.Gly232Ser | missense_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_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 | 0.99 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4249673 | p.Ser1054Pro | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4327521 | c.-48G>T | upstream_gene_variant | 0.15 |
ethA | 4328209 | c.-736C>A | upstream_gene_variant | 0.97 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
gid | 4407935 | p.Leu90Val | missense_variant | 1.0 |
gid | 4407944 | p.Gln87Glu | missense_variant | 1.0 |