TB-Profiler result

Run: ERR2228941

Summary

Run ID: ERR2228941

Sample name:

Date: 31-03-2023 16:27:17

Number of reads: 1842594

Percentage reads mapped: 27.78

Strain: lineage4.8

Drug-resistance: Other


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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.27 streptomycin
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775988 c.2493G>T synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.19
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.24
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.24
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.26
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.31
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.3
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.3
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.39
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.37
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.33
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.32
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.29
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.29
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.27
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.24
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.22
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.21
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.1
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.14
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.12
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.14
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.17
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.16
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.16
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.15
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.17
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.2
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.24
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.24
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.16
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.13
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.25
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.25
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.25
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.17
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.17
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.13
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.16
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.12
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.12
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.2
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.19
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.12
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.12
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.13
rrl 1475895 n.2238C>G non_coding_transcript_exon_variant 0.13
rrl 1475897 n.2240T>G non_coding_transcript_exon_variant 0.15
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.11
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.15
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.13
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.29
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.17
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.21
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.19
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.2
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.16
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.16
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.16
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.16
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.16
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.16
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.15
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.16
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.17
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.17
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.39
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.46
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.45
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.4
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.41
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.45
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.45
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.48
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.42
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.42
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.43
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.45
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.46
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.27
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.17
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.12
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.12
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.12
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.2
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.17
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.12
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiA 3641370 p.Tyr276* stop_gained 0.32
rpoA 3878490 c.18C>G synonymous_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0