TB-Profiler result

Run: SRR4033497
Summary

Run ID: SRR4033497

Sample name:

Date: 04-04-2023 06:08:00

Number of reads: 1122654

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 6650 p.Arg471Ser missense_variant 0.12
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 7690 p.Thr130Asn missense_variant 0.12
gyrA 9084 p.His595Tyr missense_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759615 c.-192A>C upstream_gene_variant 0.29
rpoB 763206 p.Ser1134Cys missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765690 c.2323delG frameshift_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417138 c.210G>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472997 n.1152G>A non_coding_transcript_exon_variant 0.25
rrl 1474319 n.663delG non_coding_transcript_exon_variant 0.29
rpsA 1833690 c.151delG frameshift_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168014 p.Ala867Thr missense_variant 0.2
PPE35 2169320 p.Leu431Phe missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289034 p.Pro70Thr missense_variant 0.14
folC 2747466 p.Pro45Ser missense_variant 0.13
Rv2752c 3065168 p.Pro342Ser missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074578 c.-107C>T upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086977 p.Ala53Val missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474007 c.1A>G start_lost 0.12
fprA 3474526 p.Ala174Pro missense_variant 0.12
whiB7 3568801 c.-122C>T upstream_gene_variant 0.12
fbiB 3641160 c.-375C>A upstream_gene_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242425 p.Arg855Gly missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327487 c.-14G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408310 c.-108G>A upstream_gene_variant 0.12