TB-Profiler result

Run: SRR6044991
Summary

Run ID: SRR6044991

Sample name:

Date: 04-04-2023 11:51:04

Number of reads: 2519917

Percentage reads mapped: 96.84

Strain: lineage4.8

Drug-resistance: Sensitive

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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
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
mshA 576574 c.1227T>C synonymous_variant 1.0
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 1472436 n.591G>T non_coding_transcript_exon_variant 0.12
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.14
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.14
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.13
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.13
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.13
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.13
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.14
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.2
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.2
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.12
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.15
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.12
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.11
rrl 1473599 n.-59T>C upstream_gene_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475686 n.2029C>G non_coding_transcript_exon_variant 0.12
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.12
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.12
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.12
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.21
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.25
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.11
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.11
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.12
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.13
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.13
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.13
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.14
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.11
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.11
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.1
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.33
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.33
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.44
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.27
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.27
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.36
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.36
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.36
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.27
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.31
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.23
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.33
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.36
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.27
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.31
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.23
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.31
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.18
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.29
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.19
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.22
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.28
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.27
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.2
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.21
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.18
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.29
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
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