Run ID: SRR6797701
Sample name:
Date: 04-04-2023 16:15:56
Number of reads: 1095730
Percentage reads mapped: 98.76
Strain: lineage1.1.2
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 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | 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 |
gyrB | 6124 | c.885C>T | synonymous_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 | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9499 | p.Lys733Arg | missense_variant | 0.12 |
fgd1 | 491018 | p.Phe79Ser | missense_variant | 0.38 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575661 | p.Pro105His | missense_variant | 0.15 |
rpoB | 759974 | p.Glu56Asp | missense_variant | 0.14 |
rpoB | 760490 | c.684C>T | synonymous_variant | 1.0 |
rpoB | 761865 | p.Gly687Cys | missense_variant | 0.13 |
rpoB | 761885 | c.2079T>A | synonymous_variant | 0.14 |
rpoB | 762321 | p.Gly839Cys | missense_variant | 0.14 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775652 | c.2829C>A | synonymous_variant | 0.14 |
mmpL5 | 776095 | p.Arg796Cys | missense_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 |
rplC | 801024 | c.216C>A | synonymous_variant | 0.15 |
Rv1258c | 1406691 | p.Arg217Leu | missense_variant | 0.22 |
Rv1258c | 1406885 | c.456G>A | synonymous_variant | 1.0 |
Rv1258c | 1407347 | c.-7G>T | upstream_gene_variant | 0.14 |
embR | 1416628 | c.720C>T | synonymous_variant | 0.18 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
embR | 1417542 | c.-195C>A | upstream_gene_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673987 | p.Pro183Gln | missense_variant | 0.17 |
fabG1 | 1674174 | p.Met245Ile | missense_variant | 0.12 |
fabG1 | 1674179 | p.His247Leu | missense_variant | 0.12 |
inhA | 1674957 | c.756G>T | synonymous_variant | 0.13 |
rpsA | 1833910 | p.Asp123Glu | missense_variant | 0.15 |
rpsA | 1833970 | c.429G>A | synonymous_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918208 | p.Gly90Asp | missense_variant | 0.22 |
ndh | 2101955 | p.Gln363Ser | missense_variant | 1.0 |
katG | 2154663 | p.Phe483Leu | missense_variant | 0.18 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2156570 | c.-459C>A | upstream_gene_variant | 0.33 |
PPE35 | 2167701 | p.Ala971Gly | 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 | 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 | 0.22 |
folC | 2747117 | p.Ala161Val | missense_variant | 0.25 |
pepQ | 2860518 | c.-100C>A | upstream_gene_variant | 0.11 |
ribD | 2987347 | p.Pro170Gln | missense_variant | 0.22 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-7T>C | upstream_gene_variant | 0.12 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473904 | c.-103T>A | upstream_gene_variant | 0.25 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474365 | p.Pro120Gln | missense_variant | 0.22 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
Rv3236c | 3612783 | p.Gly112Trp | missense_variant | 0.15 |
Rv3236c | 3613007 | p.Leu37Ser | missense_variant | 0.14 |
fbiA | 3640774 | p.Gly78Cys | missense_variant | 0.12 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
panD | 4044234 | c.48C>A | synonymous_variant | 0.18 |
embC | 4240075 | p.Glu71Asp | missense_variant | 0.12 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embC | 4242542 | p.Arg894Cys | missense_variant | 0.67 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4245218 | c.1986C>T | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247548 | c.1035C>T | synonymous_variant | 0.22 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4268340 | p.Pro166Gln | missense_variant | 0.18 |
ubiA | 4269031 | p.Gly268Asp | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326522 | p.Glu318* | stop_gained | 0.12 |
ethA | 4326990 | p.Ile162Phe | missense_variant | 0.15 |
ethA | 4327297 | p.Met59Ile | missense_variant | 0.13 |
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 | 4407688 | p.Arg172Leu | missense_variant | 0.15 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
gid | 4408157 | p.Leu16Ile | missense_variant | 0.22 |
gid | 4408161 | c.42G>A | synonymous_variant | 0.22 |