Run ID: SRR2101492
Sample name:
Date: 03-04-2023 23:44:59
Number of reads: 371524
Percentage reads mapped: 98.15
Strain: lineage4.3.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.99 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 0.99 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.3 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 1.0 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491096 | p.Val105Ala | missense_variant | 0.15 |
mshA | 575700 | p.Glu118Gly | missense_variant | 0.12 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.29 |
ccsA | 620044 | p.Gly52Arg | missense_variant | 0.17 |
rpoB | 760473 | p.Lys223Glu | missense_variant | 0.12 |
rpoB | 761327 | c.1521A>G | synonymous_variant | 0.18 |
rpoB | 762218 | c.2415_2416delGA | frameshift_variant | 0.13 |
rpoC | 762764 | c.-606G>A | upstream_gene_variant | 0.12 |
rpoC | 764149 | c.780G>A | synonymous_variant | 0.15 |
rpoC | 764699 | p.Pro444Ser | missense_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765631 | c.2262C>T | synonymous_variant | 0.15 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776308 | p.Asp725Asn | missense_variant | 0.11 |
mmpL5 | 776646 | p.Val612Ala | missense_variant | 0.13 |
mmpS5 | 779637 | c.-732T>C | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800725 | c.-84C>T | upstream_gene_variant | 0.17 |
fbiC | 1303905 | c.975G>T | synonymous_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471902 | n.58delA | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472151 | n.306C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472541 | n.696T>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472596 | n.751G>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472598 | n.753A>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472614 | n.769G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.3 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472669 | n.824_825insTAGG | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1473804 | n.147T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476225 | n.2568T>G | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476229 | n.2572C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476268 | n.2611A>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476275 | n.2618T>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476279 | n.2622G>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476301 | n.2644A>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.57 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.52 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476514 | n.2857C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476793 | n.3136A>G | splice_region_variant&non_coding_transcript_exon_variant | 0.29 |
inhA | 1674288 | c.89_101delAGGAGCAGGGCGC | frameshift_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918244 | p.Asp102Gly | missense_variant | 0.25 |
katG | 2155759 | p.Gly118Val | missense_variant | 0.14 |
PPE35 | 2167661 | p.Ser984Arg | missense_variant | 0.11 |
PPE35 | 2168328 | p.Pro762Gln | missense_variant | 0.12 |
PPE35 | 2168987 | c.1626A>G | synonymous_variant | 0.11 |
Rv1979c | 2222231 | p.Met312Val | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288756 | c.486T>C | synonymous_variant | 0.12 |
pncA | 2289976 | c.-735G>C | upstream_gene_variant | 0.18 |
pncA | 2290107 | c.-866T>A | upstream_gene_variant | 1.0 |
kasA | 2518684 | c.570C>A | synonymous_variant | 0.13 |
kasA | 2519177 | p.Ser355Pro | missense_variant | 0.17 |
eis | 2715041 | p.Arg98Ser | missense_variant | 0.17 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.24 |
folC | 2746821 | p.Asp260Tyr | missense_variant | 0.22 |
pepQ | 2859494 | p.Gly309Trp | missense_variant | 0.25 |
pepQ | 2860336 | p.Ile28Thr | missense_variant | 0.1 |
pepQ | 2860542 | c.-124T>A | upstream_gene_variant | 0.11 |
Rv2752c | 3065237 | p.Ser319Pro | missense_variant | 0.11 |
Rv2752c | 3066089 | p.Glu35Lys | missense_variant | 0.12 |
thyX | 3068160 | c.-215T>C | upstream_gene_variant | 0.14 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086820 | c.1A>G | start_lost | 0.2 |
Rv3083 | 3449038 | p.Lys179Glu | missense_variant | 0.17 |
Rv3083 | 3449361 | c.858C>T | synonymous_variant | 0.14 |
Rv3083 | 3449843 | p.Gly447Asp | missense_variant | 0.1 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568583 | p.Pro33Thr | missense_variant | 0.15 |
Rv3236c | 3612366 | p.Leu251Val | missense_variant | 0.22 |
fbiB | 3641421 | c.-114C>T | upstream_gene_variant | 0.14 |
fbiB | 3642340 | p.Asp269Gly | missense_variant | 0.29 |
clpC1 | 4038191 | c.2514C>T | synonymous_variant | 0.14 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038863 | c.1842G>T | synonymous_variant | 0.29 |
embC | 4241674 | c.1812C>T | synonymous_variant | 0.29 |
embC | 4242010 | c.2148G>T | synonymous_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245470 | c.2238T>C | synonymous_variant | 0.2 |
embB | 4248078 | p.Asn522Ser | missense_variant | 0.17 |
embB | 4249669 | p.Tyr1052* | stop_gained | 0.2 |
aftB | 4267494 | p.Gly448Val | missense_variant | 0.12 |
ethA | 4327402 | p.Gln24His | missense_variant | 0.12 |
ethR | 4327652 | p.Asn35Ser | missense_variant | 0.14 |
ethR | 4327688 | p.Val47Asp | missense_variant | 0.17 |
ethA | 4328215 | c.-742C>A | upstream_gene_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |