Run ID: SRR17567930
Sample name:
Date: 03-04-2023 18:01:59
Number of reads: 273342
Percentage reads mapped: 6.82
Strain: lineage4.4.1.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 0.99 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 0.95 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
pncA | 2288788 | c.446_453delATGGCTTG | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
pncA | 2288824 | p.Arg140Ser | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 | 762872 | p.Met1022Ile | missense_variant | 0.33 |
rpoB | 762878 | p.Ile1024Met | missense_variant | 0.4 |
rpoB | 762879 | p.Met1025Leu | missense_variant | 0.4 |
rpoC | 762896 | c.-474G>C | upstream_gene_variant | 0.6 |
rpoC | 762917 | c.-453C>G | upstream_gene_variant | 0.67 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.67 |
rpoB | 762925 | p.Thr1040Ile | missense_variant | 0.67 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.75 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.77 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.77 |
rpoC | 762965 | c.-405T>C | upstream_gene_variant | 0.69 |
rpoC | 762980 | c.-390T>C | upstream_gene_variant | 0.75 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.74 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.71 |
rpoB | 763005 | p.Cys1067Val | missense_variant | 0.56 |
rpoC | 763013 | c.-357C>G | upstream_gene_variant | 0.5 |
rpoB | 763014 | p.Met1070Leu | missense_variant | 0.5 |
rpoB | 763017 | p.Gln1071Glu | missense_variant | 0.5 |
rpoC | 763028 | c.-342T>C | upstream_gene_variant | 0.54 |
rpoC | 763031 | c.-339T>G | upstream_gene_variant | 0.46 |
rpoC | 763040 | c.-330C>G | upstream_gene_variant | 0.42 |
rpoB | 763050 | p.Leu1082Met | missense_variant | 0.31 |
rpoC | 763053 | c.-317T>C | upstream_gene_variant | 0.2 |
rpoC | 764428 | c.1059G>C | synonymous_variant | 0.3 |
rpoC | 764431 | c.1062G>C | synonymous_variant | 0.33 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.33 |
rpoC | 764435 | c.1066A>C | synonymous_variant | 0.33 |
rpoC | 764446 | p.Asp359Glu | missense_variant | 0.38 |
rpoC | 764450 | p.Gly361Arg | missense_variant | 0.33 |
rpoC | 764461 | p.Glu364Asp | missense_variant | 0.27 |
rpoC | 764468 | p.Val367Ile | missense_variant | 0.27 |
rpoC | 764471 | p.Asn368Arg | missense_variant | 0.3 |
rpoC | 764485 | c.1116G>C | synonymous_variant | 0.3 |
rpoC | 764491 | c.1122G>T | synonymous_variant | 0.25 |
rpoC | 764497 | c.1128A>G | synonymous_variant | 0.25 |
rpoC | 764498 | p.Ser377Ala | missense_variant | 0.25 |
rpoC | 764506 | c.1137C>T | synonymous_variant | 0.23 |
rpoC | 764575 | c.1206T>C | synonymous_variant | 0.25 |
rpoC | 764576 | p.Ser403Ala | missense_variant | 0.25 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.33 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.38 |
rpoC | 764587 | c.1218C>G | synonymous_variant | 0.41 |
rpoC | 764605 | c.1236G>C | synonymous_variant | 0.6 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.62 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.73 |
rpoC | 764650 | c.1281G>C | synonymous_variant | 0.74 |
rpoC | 764672 | p.Gln435Glu | missense_variant | 0.79 |
rpoC | 764677 | c.1308C>G | synonymous_variant | 0.79 |
rpoC | 764695 | c.1326T>C | synonymous_variant | 0.73 |
rpoC | 764701 | c.1332C>G | synonymous_variant | 0.68 |
rpoC | 764705 | p.Leu446Lys | missense_variant | 0.6 |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.57 |
rpoC | 764735 | p.Val456Met | missense_variant | 0.17 |
rpoC | 766817 | p.His1150Asn | missense_variant | 0.2 |
rpoC | 766843 | c.3474T>C | synonymous_variant | 0.2 |
rpoC | 766846 | c.3477C>G | synonymous_variant | 0.22 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303911 | c.981G>A | synonymous_variant | 0.22 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472089 | n.244C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.78 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472128 | n.283G>C | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472129 | n.284G>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472138 | n.293C>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472147 | n.302G>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472153 | n.308G>A | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.93 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472266 | n.421C>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472277 | n.432C>G | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472698 | n.853A>C | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472715 | n.870C>T | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.77 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472812 | n.967A>C | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473191 | n.1346C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473206 | n.1361G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474770 | n.1113G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474774 | n.1117A>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474777 | n.1120T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474780 | n.1123C>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474801 | n.1145delT | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474825 | n.1168G>C | non_coding_transcript_exon_variant | 0.55 |
rrl | 1474828 | n.1171G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474832 | n.1176delG | non_coding_transcript_exon_variant | 0.55 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1474875 | n.1218G>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1474876 | n.1219T>A | non_coding_transcript_exon_variant | 0.38 |
rrl | 1474883 | n.1226T>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1475791 | n.2134A>G | non_coding_transcript_exon_variant | 0.57 |
rrl | 1475803 | n.2146T>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1475804 | n.2147G>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1475816 | n.2159C>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476336 | n.2679C>G | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476356 | n.2699C>G | non_coding_transcript_exon_variant | 0.89 |
rrl | 1476357 | n.2700T>A | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.88 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476384 | n.2727G>C | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476428 | n.2771C>A | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476443 | n.2786G>C | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476455 | n.2798C>G | non_coding_transcript_exon_variant | 0.94 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.93 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.91 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.83 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.78 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476569 | n.2912G>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476584 | n.2927C>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476586 | n.2929C>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476588 | n.2931A>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476595 | n.2938C>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476602 | n.2945G>C | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476607 | n.2950C>G | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476608 | n.2951C>T | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476611 | n.2954T>A | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476613 | n.2956G>C | non_coding_transcript_exon_variant | 0.73 |
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476621 | n.2964C>T | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476624 | n.2967T>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476630 | n.2973A>G | non_coding_transcript_exon_variant | 0.69 |
rrl | 1476645 | n.2988A>G | non_coding_transcript_exon_variant | 0.65 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2155002 | c.1110G>T | synonymous_variant | 0.67 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.92 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
rpoA | 3878413 | p.Tyr32Phe | missense_variant | 0.4 |
clpC1 | 4040032 | p.Val225Ile | missense_variant | 0.5 |
clpC1 | 4040033 | c.672G>C | synonymous_variant | 0.5 |
clpC1 | 4040045 | c.660C>G | synonymous_variant | 0.5 |
clpC1 | 4040066 | c.639G>C | synonymous_variant | 0.44 |
clpC1 | 4040090 | c.615T>G | synonymous_variant | 0.43 |
clpC1 | 4040093 | c.612C>G | synonymous_variant | 0.43 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4248495 | p.Pro661Gln | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |