TB-Profiler result

Run: SRR10851741
Summary

Run ID: SRR10851741

Sample name:

Date: 02-04-2023 19:33:51

Number of reads: 887651

Percentage reads mapped: 91.18

Strain: lineage4.3.4.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8715 p.Pro472Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490756 c.-27T>G upstream_gene_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.3
mshA 576111 p.Ala255Gly missense_variant 0.15
rpoB 759608 c.-199C>T upstream_gene_variant 1.0
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472029 n.184C>T non_coding_transcript_exon_variant 0.11
rrs 1472508 n.663T>C non_coding_transcript_exon_variant 0.15
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.23
rrs 1473183 n.1338A>G non_coding_transcript_exon_variant 0.18
rrl 1473646 n.-12T>C upstream_gene_variant 0.15
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.2
rrl 1476436 n.2779A>G non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726323 p.Pro44Arg missense_variant 1.0
pepQ 2859830 p.Gly197Arg missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448598 p.Ile32Thr missense_variant 1.0
Rv3083 3448879 p.Gly126Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
Rv3236c 3612768 p.Ala117Pro missense_variant 1.0
rpoA 3878630 c.-123G>C upstream_gene_variant 0.22
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040566 p.Lys47Gln missense_variant 0.19
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