TB-Profiler result

Run: ERR4872193
Summary

Run ID: ERR4872193

Sample name:

Date: 01-04-2023 21:26:51

Number of reads: 6245183

Percentage reads mapped: 86.15

Strain: lineage4.6

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.6 Euro-American T;LAM None 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rpoB 761139 p.His445Asp missense_variant 1.0 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.82 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8266 p.Ala322Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.18
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.22
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 0.22
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.22
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.22
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.29
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.29
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.33
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.33
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.33
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.33
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.33
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.4
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.29
rrs 1472207 n.362A>G non_coding_transcript_exon_variant 0.29
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.83
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.83
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.83
rrs 1472545 n.700A>G non_coding_transcript_exon_variant 0.83
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.71
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.71
rrs 1472572 n.727T>C non_coding_transcript_exon_variant 0.71
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.71
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.71
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.71
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.71
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.71
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.71
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.71
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.71
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.75
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.9
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.9
rrs 1472659 n.814G>T non_coding_transcript_exon_variant 0.9
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.83
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.83
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.83
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.83
rrs 1472715 n.870C>A non_coding_transcript_exon_variant 0.83
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.83
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.83
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.71
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.71
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.5
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.11
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.14
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.67
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 0.67
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.67
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.67
rrl 1474208 n.551C>T non_coding_transcript_exon_variant 1.0
rrl 1474213 n.556G>A non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 1.0
rrl 1474228 n.571T>A non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 1.0
rrl 1474263 n.606G>T non_coding_transcript_exon_variant 1.0
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.22
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.22
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.3
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.3
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.3
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.27
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.3
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.22
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.22
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.2
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.18
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.36
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.36
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.36
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.5
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.53
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.21
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.76
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.19
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.69
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.81
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.84
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.81
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.81
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.71
rrl 1476427 n.2770G>T non_coding_transcript_exon_variant 0.65
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.74
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.65
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.7
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.77
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.8
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.81
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.78
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.75
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.7
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.61
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.67
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.67
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.67
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.65
rrl 1476528 n.2871A>T non_coding_transcript_exon_variant 0.61
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.55
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.6
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.58
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.54
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.48
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.46
rrl 1476582 n.2925T>C non_coding_transcript_exon_variant 0.44
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.21
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.16
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.38
whiB6 4338595 c.-75delG upstream_gene_variant 1.0