TB-Profiler result

Run: SRR13837658
Summary

Run ID: SRR13837658

Sample name:

Date: 03-04-2023 09:15:19

Number of reads: 293870

Percentage reads mapped: 95.02

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
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
gyrB 5807 p.Val190Phe missense_variant 1.0
gyrA 6898 c.-404G>C upstream_gene_variant 1.0
gyrA 8039 c.738T>C synonymous_variant 1.0
mshA 575293 c.-55T>A upstream_gene_variant 1.0
mshA 575414 p.Gly23Ser missense_variant 1.0
rpoC 765124 c.1755G>C synonymous_variant 1.0
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.18
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.27
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.23
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.15
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.21
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.15
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.14
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.21
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.15
rpsA 1834248 p.His236Leu missense_variant 1.0
katG 2154449 p.Ala555Ser missense_variant 1.0
PPE35 2170218 p.Ala132Glu missense_variant 1.0
eis 2715396 c.-65delT upstream_gene_variant 1.0
ribD 2987136 p.Val100Ile missense_variant 1.0
ribD 2987590 p.Leu251Arg missense_variant 1.0
Rv2752c 3064996 p.Thr399Asn missense_variant 1.0
alr 3841281 p.His47Arg missense_variant 1.0
clpC1 4039292 c.1413C>A synonymous_variant 0.88
clpC1 4039426 p.Lys427Gln missense_variant 1.0
embA 4243228 c.-5G>T upstream_gene_variant 1.0
embA 4243540 p.Ala103Asp missense_variant 1.0
embA 4244146 p.Asp305Ala missense_variant 1.0
embB 4249506 c.2994delG frameshift_variant 1.0