TB-Profiler result

Run: SRR19303933
Summary

Run ID: SRR19303933

Sample name:

Date: 03-04-2023 21:14:41

Number of reads: 5993542

Percentage reads mapped: 53.94

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
gid 4408100 c.102dupG frameshift_variant 1.0 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
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576482 p.Val379Leu missense_variant 0.11
rpoB 761722 p.Glu639Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778430 c.-560C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474307 n.650G>A non_coding_transcript_exon_variant 1.0
rrl 1475917 n.2260T>C non_coding_transcript_exon_variant 0.5
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.4
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 0.23
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.23
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.2
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.37
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.4
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.35
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.33
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.25
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.21
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.22
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.22
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.21
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.2
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 2222042 p.Thr375Ser missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3087917 c.1098C>T synonymous_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.26
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.16
embB 4249765 c.3252C>A synonymous_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