TB-Profiler result

Run: SRR18213675
Summary

Run ID: SRR18213675

Sample name:

Date: 03-04-2023 19:24:44

Number of reads: 2631692

Percentage reads mapped: 96.9

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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.1
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.1
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.11
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 0.12
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.12
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.12
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.12
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.14
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.15
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.29
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.47
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.44
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.42
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.42
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.48
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.48
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.43
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.48
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.58
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.58
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.57
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.35
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.31
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.27
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.21
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.2
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.19
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.21
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.21
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.2
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.19
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.25
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.25
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 1472793 n.948A>T non_coding_transcript_exon_variant 0.1
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.1
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.57
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.57
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.57
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.57
rrl 1475232 n.1575A>C non_coding_transcript_exon_variant 0.5
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.14
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.14
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.14
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.17
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.17
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.16
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.15
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.14
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.14
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.14
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.14
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.14
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.13
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.13
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.15
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.15
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.2
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.24
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.19
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.21
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.21
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.21
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.19
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.19
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.23
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.24
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.25
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.18
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
whiB7 3568862 c.-183C>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4326365 p.Lys370Met missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407703 p.Ala167Asp missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0