Run ID: SRR12199424
Sample name:
Date: 03-04-2023 06:39:01
Number of reads: 394119
Percentage reads mapped: 97.95
Strain: lineage1.1
Drug-resistance: Other
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
pncA | 2288933 | p.Tyr103* | stop_gained | 0.18 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7578 | p.Tyr93His | missense_variant | 0.18 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9047 | c.1746C>T | synonymous_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9443 | c.2142G>A | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.43 |
rpoB | 760490 | c.684C>T | synonymous_variant | 1.0 |
rpoB | 761152 | p.Leu449Gln | missense_variant | 0.4 |
rpoB | 761315 | p.Phe503Leu | missense_variant | 0.2 |
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 | 775979 | c.2502G>A | synonymous_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776395 | p.Phe696Leu | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781928 | p.Lys123Asn | missense_variant | 1.0 |
embR | 1416615 | p.Pro245Ala | missense_variant | 0.17 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473615 | n.-43G>C | upstream_gene_variant | 1.0 |
rrl | 1476046 | n.2389G>T | non_coding_transcript_exon_variant | 0.18 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.19 |
tlyA | 1917854 | c.-86A>G | upstream_gene_variant | 0.4 |
ndh | 2102351 | p.Arg231Leu | missense_variant | 0.22 |
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 | 2169369 | p.Gly415Ala | missense_variant | 0.93 |
PPE35 | 2169488 | c.1125G>C | synonymous_variant | 0.14 |
PPE35 | 2169491 | c.1122T>C | synonymous_variant | 0.14 |
PPE35 | 2169598 | p.Phe339Val | missense_variant | 0.12 |
PPE35 | 2169732 | p.Asn294Ser | missense_variant | 0.13 |
PPE35 | 2169748 | p.Ile289Phe | missense_variant | 0.14 |
PPE35 | 2169768 | p.Ala282Val | missense_variant | 0.15 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.2 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.2 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.55 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.55 |
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 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.29 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087668 | p.Tyr283* | stop_gained | 0.25 |
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 | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
alr | 3841463 | c.-43A>G | upstream_gene_variant | 0.12 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.24 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 0.12 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240738 | c.876C>T | synonymous_variant | 0.2 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243758 | p.Asp176Asn | missense_variant | 0.17 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4243875 | c.643C>T | synonymous_variant | 1.0 |
embA | 4243885 | c.655delG | frameshift_variant | 0.22 |
embA | 4244217 | p.Thr329Ala | missense_variant | 0.33 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4328398 | c.-925C>T | upstream_gene_variant | 0.22 |
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 |