Run ID: SRR4033291
Sample name:
Date: 04-04-2023 05:58:24
Number of reads: 844407
Percentage reads mapped: 99.77
Strain: lineage4.8.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
lineage4.8.1 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6958 | p.Trp573* | stop_gained | 0.15 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoC | 765550 | p.Ser727Arg | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776490 | c.1990delG | frameshift_variant | 0.11 |
mmpL5 | 778738 | c.-258G>T | upstream_gene_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1833794 | p.Glu85* | stop_gained | 0.11 |
rpsA | 1833985 | c.444G>T | synonymous_variant | 0.14 |
rpsA | 1834577 | p.Val346Ile | missense_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288951 | c.291T>C | synonymous_variant | 0.14 |
kasA | 2518660 | p.Trp182* | stop_gained | 0.15 |
Rv2752c | 3066143 | p.Arg17Trp | missense_variant | 0.11 |
fbiD | 3339040 | c.-78T>C | upstream_gene_variant | 1.0 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.17 |
whiB7 | 3568794 | c.-115C>T | upstream_gene_variant | 0.17 |
fbiA | 3641077 | p.Gln179Lys | missense_variant | 0.17 |
fbiB | 3642874 | p.Leu447Arg | missense_variant | 1.0 |
clpC1 | 4039119 | c.1585delT | frameshift_variant | 0.12 |
clpC1 | 4040327 | c.378G>A | synonymous_variant | 0.17 |
embC | 4239946 | p.Ile28Met | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243529 | c.297T>C | synonymous_variant | 0.18 |
embA | 4246020 | p.Ala930Thr | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |