TB-Profiler result

Run: SRR4037861
Summary

Run ID: SRR4037861

Sample name:

Date: 04-04-2023 07:43:37

Number of reads: 1048210

Percentage reads mapped: 99.59

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrB 5788 c.549G>T synonymous_variant 0.12
gyrB 7195 p.Met652Ile missense_variant 0.14
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 619798 c.-93G>A upstream_gene_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777350 c.1131G>T synonymous_variant 0.12
mmpR5 779249 p.Gly87Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304411 p.Asp494Gly missense_variant 0.12
Rv1258c 1407178 p.Leu55Met missense_variant 0.12
embR 1417500 c.-153C>A upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
inhA 1674272 p.His24Arg missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154224 p.Gly630Cys missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 0.12
katG 2155934 p.Ala60Ser missense_variant 0.14
PPE35 2169335 p.Asp426Glu missense_variant 0.12
Rv1979c 2222166 p.Ser333Arg missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518711 c.599delG frameshift_variant 0.12
kasA 2519332 c.1218C>A synonymous_variant 0.3
eis 2715115 p.Gly73Val missense_variant 0.11
folC 2746955 c.643delG frameshift_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086940 p.Glu41* stop_gained 0.12
ald 3087471 p.Arg218Ser missense_variant 0.12
Rv3083 3449520 c.1017C>T synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474681 c.675C>A synonymous_variant 0.2
fbiB 3641595 p.Pro21Ser missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246912 c.399G>A synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0