Run ID: SRR3675589
Sample name:
Date: 04-04-2023 05:35:23
Number of reads: 891997
Percentage reads mapped: 83.39
Strain: lineage4
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5954 | p.Glu239Lys | missense_variant | 0.13 |
gyrB | 6061 | p.Ser274Arg | missense_variant | 1.0 |
gyrB | 6402 | p.Cys388Ser | missense_variant | 0.1 |
gyrB | 6790 | p.Phe517Leu | missense_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 759628 | c.-179C>T | upstream_gene_variant | 1.0 |
rpoB | 759995 | c.189C>A | synonymous_variant | 0.11 |
rpoB | 760550 | p.Phe248Leu | missense_variant | 0.11 |
rpoB | 761450 | c.1644C>T | synonymous_variant | 0.11 |
rpoC | 763639 | c.270G>A | synonymous_variant | 0.18 |
rpoC | 764109 | p.Arg247His | missense_variant | 0.12 |
rpoC | 766726 | c.3357T>C | synonymous_variant | 0.14 |
rpoC | 766738 | c.3369G>T | synonymous_variant | 0.12 |
rpoC | 766749 | c.3381C>G | synonymous_variant | 0.12 |
rpoC | 766765 | c.3396A>C | synonymous_variant | 0.1 |
rpoC | 766774 | c.3405T>C | synonymous_variant | 0.1 |
rpoC | 766804 | c.3435A>G | synonymous_variant | 0.15 |
rpoC | 766843 | c.3474T>C | synonymous_variant | 0.15 |
rpoC | 766861 | c.3492G>C | synonymous_variant | 0.16 |
rpoC | 766864 | c.3495G>C | synonymous_variant | 0.16 |
rpoC | 766900 | c.3531T>C | synonymous_variant | 0.1 |
rpoC | 766933 | c.3564A>G | synonymous_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776697 | p.Pro595Gln | missense_variant | 0.13 |
mmpL5 | 776924 | c.1557G>A | synonymous_variant | 0.12 |
mmpL5 | 776961 | p.Ser507Ile | missense_variant | 0.12 |
mmpL5 | 778458 | p.Ala8Val | missense_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781763 | c.204C>T | synonymous_variant | 0.14 |
rplC | 800852 | p.Gln15Arg | missense_variant | 0.11 |
rplC | 801025 | p.Ala73Thr | missense_variant | 0.15 |
fbiC | 1303016 | p.Val29Gly | missense_variant | 0.38 |
Rv1258c | 1407255 | p.Ala29Glu | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473226 | n.1381C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476463 | n.2806C>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476512 | n.2855C>G | non_coding_transcript_exon_variant | 1.0 |
inhA | 1673628 | c.-574C>A | upstream_gene_variant | 0.15 |
rpsA | 1833634 | p.Lys31Asn | missense_variant | 0.18 |
rpsA | 1833879 | p.Trp113Leu | missense_variant | 0.33 |
rpsA | 1834103 | p.Arg188Cys | missense_variant | 0.12 |
rpsA | 1834375 | c.834G>C | synonymous_variant | 0.1 |
rpsA | 1834406 | p.Arg289Ser | missense_variant | 0.11 |
rpsA | 1834411 | c.870T>G | synonymous_variant | 0.11 |
rpsA | 1834414 | c.873C>T | synonymous_variant | 0.11 |
rpsA | 1834417 | c.876G>C | synonymous_variant | 0.17 |
rpsA | 1834420 | c.879C>T | synonymous_variant | 0.12 |
rpsA | 1834423 | c.882G>C | synonymous_variant | 0.12 |
rpsA | 1834429 | c.888C>T | synonymous_variant | 0.12 |
rpsA | 1834438 | c.897C>T | synonymous_variant | 0.14 |
rpsA | 1834451 | c.910T>C | synonymous_variant | 0.19 |
rpsA | 1834456 | c.915T>G | synonymous_variant | 0.2 |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.18 |
rpsA | 1834477 | c.936C>T | synonymous_variant | 0.12 |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103225 | c.-183A>C | upstream_gene_variant | 0.23 |
katG | 2154206 | p.Ala636Thr | missense_variant | 0.11 |
katG | 2156536 | c.-425C>A | upstream_gene_variant | 0.12 |
PPE35 | 2169140 | c.1473G>T | synonymous_variant | 0.2 |
PPE35 | 2169509 | c.1104T>C | synonymous_variant | 0.12 |
PPE35 | 2169823 | p.Ala264Thr | missense_variant | 0.11 |
Rv1979c | 2222200 | p.Gly322Asp | missense_variant | 0.13 |
Rv1979c | 2223233 | c.-69G>T | upstream_gene_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517993 | c.-122G>C | upstream_gene_variant | 0.14 |
kasA | 2518236 | p.Ser41Ile | missense_variant | 0.2 |
ahpC | 2726537 | c.345G>A | synonymous_variant | 1.0 |
pepQ | 2859470 | p.Leu317Met | missense_variant | 0.12 |
ribD | 2987316 | p.Ala160Pro | missense_variant | 0.11 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.21 |
fprA | 3474299 | p.Asp98Gly | missense_variant | 1.0 |
fprA | 3474448 | p.Ala148Thr | missense_variant | 1.0 |
Rv3236c | 3612859 | c.258G>C | synonymous_variant | 0.14 |
Rv3236c | 3612961 | c.156C>T | synonymous_variant | 0.14 |
fbiA | 3640417 | c.-126C>T | upstream_gene_variant | 0.15 |
rpoA | 3878050 | p.Arg153Leu | missense_variant | 0.12 |
rpoA | 3878334 | c.174T>C | synonymous_variant | 0.11 |
panD | 4043957 | p.Asp109Asn | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244520 | c.1292delC | frameshift_variant | 0.11 |
embB | 4249721 | p.Leu1070Met | missense_variant | 0.11 |
aftB | 4269807 | c.-971T>C | upstream_gene_variant | 0.1 |
ethA | 4328317 | c.-844C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |