TB-Profiler result

Run: SRR21240243
Summary

Run ID: SRR21240243

Sample name:

Date: 04-04-2023 00:13:07

Number of reads: 1215878

Percentage reads mapped: 86.76

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 0.2 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9431 c.2130G>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.33
mshA 576482 p.Val379Leu missense_variant 0.16
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406630 c.711G>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.11
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.16
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.21
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.18
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.19
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.19
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.19
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.19
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.19
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.14
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.14
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.19
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.15
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.15
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.19
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.22
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.19
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.18
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.2
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.2
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.21
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.2
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.19
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.19
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.19
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.17
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.24
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.27
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.14
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.14
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.17
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.15
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.16
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.18
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.17
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.19
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.19
rrl 1474921 n.1264C>T non_coding_transcript_exon_variant 1.0
rrl 1475927 n.2270G>T non_coding_transcript_exon_variant 0.15
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.28
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.3
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.36
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.34
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.33
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.33
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.31
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.32
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.29
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.29
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.29
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.29
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.29
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.29
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.29
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.28
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.28
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.28
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.4
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.49
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.53
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.48
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.45
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.41
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.41
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.36
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.36
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.34
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.35
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.45
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.41
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.25
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.14
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.14
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.15
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.16
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.16
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.16
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.16
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.16
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.15
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102308 c.735G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449854 p.Met451Val missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878630 c.-123G>C upstream_gene_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0