Run ID: ERR245754
Sample name:
Date: 31-03-2023 18:19:21
Number of reads: 12932897
Percentage reads mapped: 99.41
Strain: lineage4.1.2;lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.43 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.57 |
lineage4.1 | Euro-American | T;X;H | None | 0.57 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.44 |
lineage4.1.2 | Euro-American | T;H | None | 0.57 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.43 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7323 | p.Pro8Ala | missense_variant | 0.53 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7493 | c.192C>T | synonymous_variant | 0.24 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.57 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.42 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.47 |
ccsA | 620407 | p.Pro173Ala | missense_variant | 0.25 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.43 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.54 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.23 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.4 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.55 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.41 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.42 |
mmpL5 | 776659 | p.Asp608Asn | missense_variant | 0.55 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.42 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.38 |
embR | 1417233 | c.115C>T | synonymous_variant | 0.25 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473343 | n.1498G>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.2 |
inhA | 1674892 | p.Asn231Asp | missense_variant | 0.18 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.4 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103226 | c.-184C>G | upstream_gene_variant | 0.43 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.44 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.41 |
PPE35 | 2168501 | p.Phe704Leu | missense_variant | 0.52 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.46 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.58 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.16 |
eis | 2715586 | c.-254G>C | upstream_gene_variant | 0.45 |
ahpC | 2725954 | c.-239C>T | upstream_gene_variant | 0.32 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.24 |
pepQ | 2859974 | p.Ala149Pro | missense_variant | 0.17 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.12 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.2 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.25 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.14 |
ald | 3086739 | c.-81G>A | upstream_gene_variant | 0.42 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449058 | p.Ser185Arg | missense_variant | 0.25 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.35 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.21 |
rpoA | 3878238 | p.Asp90Glu | missense_variant | 0.13 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.29 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.18 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.27 |
embC | 4241456 | p.Ala532Pro | missense_variant | 0.4 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.24 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.55 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.41 |
embC | 4242827 | p.Leu989Val | missense_variant | 0.19 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.4 |
embB | 4247121 | p.Ser203Leu | missense_variant | 0.61 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.37 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.25 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.26 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.38 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.43 |