TB-Profiler result

Run: SRR6832305
Summary

Run ID: SRR6832305

Sample name:

Date: 04-04-2023 17:21:07

Number of reads: 623180

Percentage reads mapped: 99.43

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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
fgd1 491760 c.978G>T synonymous_variant 0.29
mshA 575903 p.Ala186Thr missense_variant 0.18
rpoC 767155 c.3786C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777451 p.Val344Leu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801002 p.Pro65Leu missense_variant 0.17
fbiC 1303702 p.Gly258Cys missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473092 n.1247G>C non_coding_transcript_exon_variant 0.18
rrl 1473533 n.-125G>A upstream_gene_variant 0.17
rrl 1474900 n.1244delA non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168748 p.Ile622Thr missense_variant 0.33
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289251 c.-11delA upstream_gene_variant 0.25
thyX 3067781 c.165C>T synonymous_variant 0.12
thyX 3067993 c.-48C>T upstream_gene_variant 0.15
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248008 c.1495C>T synonymous_variant 0.15
embB 4249434 p.Leu974Pro missense_variant 0.18
embB 4249715 p.Asp1068Asn missense_variant 0.29
ubiA 4269730 p.Ala35Val missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407665 p.Ala180Thr missense_variant 0.2
gid 4407812 p.Ser131Gly missense_variant 0.2
gid 4407846 c.357C>T synonymous_variant 0.25
gid 4408213 c.-11C>T upstream_gene_variant 1.0