TB-Profiler result

Run: SRR4033524
Summary

Run ID: SRR4033524

Sample name:

Date: 04-04-2023 06:09:05

Number of reads: 877206

Percentage reads mapped: 99.67

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 7220 p.Ser661Cys missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7605 p.Pro102Ser missense_variant 0.2
gyrA 8948 c.1647G>A synonymous_variant 0.12
gyrA 9099 p.Leu600Ile missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575507 p.Thr54Ala missense_variant 0.13
mshA 575520 p.Ala58Val missense_variant 0.12
mshA 576201 p.Arg285His missense_variant 0.2
rpoB 762435 p.Asp877Asn missense_variant 0.2
rpoC 762836 c.-534C>G upstream_gene_variant 0.4
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765480 c.2114dupC frameshift_variant 0.12
rpoC 767172 p.Arg1268His missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779016 c.-536C>T upstream_gene_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801003 c.195G>A synonymous_variant 0.12
fbiC 1303070 p.Ala47Val missense_variant 0.14
fbiC 1305434 p.Ala835Val missense_variant 0.12
Rv1258c 1406593 c.747delA frameshift_variant 0.13
embR 1417303 c.45G>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
inhA 1673448 c.-754C>A upstream_gene_variant 0.14
fabG1 1673721 p.Asp94Glu missense_variant 0.22
inhA 1673826 c.-376C>G upstream_gene_variant 0.11
rpsA 1833535 c.-6delA upstream_gene_variant 0.22
rpsA 1834387 p.Asp282Glu missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155085 c.1027C>T synonymous_variant 0.11
katG 2155719 c.393G>A synonymous_variant 0.18
PPE35 2169320 p.Leu431Phe missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518685 p.Asp191Asn missense_variant 0.12
kasA 2519272 c.1158C>T synonymous_variant 0.11
ahpC 2726518 p.Pro109Gln missense_variant 0.25
pepQ 2860299 c.120C>T synonymous_variant 0.13
Rv2752c 3065972 c.217_219dupGAC conservative_inframe_insertion 0.29
thyX 3067695 p.Gly84Glu missense_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086840 c.21C>A synonymous_variant 0.11
ald 3087903 p.Pro362Ser missense_variant 0.15
fbiD 3339470 p.Pro118Arg missense_variant 0.17
Rv3083 3448711 p.Arg70Cys missense_variant 0.12
Rv3083 3448872 p.Glu123Asp missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474089 p.Thr28Met missense_variant 0.11
fprA 3474640 c.634T>C synonymous_variant 0.12
whiB7 3568480 p.Gly67Asp missense_variant 0.33
fbiA 3641030 p.Ser163Ile missense_variant 0.15
fbiA 3641124 p.Ser194Arg missense_variant 0.11
fbiB 3642524 c.990G>T synonymous_variant 0.2
alr 3841447 c.-27A>G upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038315 p.Gly797Val missense_variant 0.11
clpC1 4038985 p.Asp574Tyr missense_variant 0.11
clpC1 4039805 c.900C>T synonymous_variant 0.15
panD 4043865 c.416delG frameshift_variant 0.2
embC 4240759 c.898delA frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245430 p.Cys733Phe missense_variant 0.12
embB 4247649 p.Ala379Val missense_variant 0.14
aftB 4267478 c.1359G>C synonymous_variant 0.17
ubiA 4269469 p.Pro122Gln missense_variant 0.14
whiB6 4338549 c.-28G>A upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0