TB-Profiler result

Run: SRR10809087
Summary

Run ID: SRR10809087

Sample name:

Date: 02-04-2023 19:22:30

Number of reads: 4771032

Percentage reads mapped: 89.78

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.27
rpoC 763031 c.-339T>G upstream_gene_variant 0.11
rpoC 763040 c.-330C>G upstream_gene_variant 0.11
rpoC 763070 c.-300T>C upstream_gene_variant 0.15
rpoC 763082 c.-288C>T upstream_gene_variant 0.14
rpoC 763088 c.-282C>G upstream_gene_variant 0.13
rpoC 763094 c.-276G>C upstream_gene_variant 0.12
rpoC 764611 c.1242G>T synonymous_variant 0.12
rpoC 764626 c.1257C>T synonymous_variant 0.12
rpoC 764632 c.1263T>C synonymous_variant 0.11
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 1472734 n.889C>T non_coding_transcript_exon_variant 0.13
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.13
rpsA 1833877 c.336C>G synonymous_variant 0.1
rpsA 1833886 c.345C>G synonymous_variant 0.12
rpsA 1833928 c.387G>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.99
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878271 c.237T>C synonymous_variant 0.1
rpoA 3878283 p.Glu75Asp missense_variant 0.11
rpoA 3878298 c.210A>G synonymous_variant 0.11
clpC1 4039556 c.1149G>C synonymous_variant 0.11
panD 4044210 c.72C>T synonymous_variant 0.98
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0