TB-Profiler result

Run: SRR4034001
Summary

Run ID: SRR4034001

Sample name:

Date: 04-04-2023 06:30:09

Number of reads: 1101898

Percentage reads mapped: 99.61

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
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
rpoB 761349 p.Asp515Asn missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766360 c.2993_2994dupTG frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303536 c.606G>C synonymous_variant 1.0
embR 1416957 c.390delG frameshift_variant 0.12
embR 1417176 p.Ala58Thr missense_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 1674572 p.Ala124Val missense_variant 0.11
rpsA 1833976 c.435C>G synonymous_variant 0.12
rpsA 1834245 p.Val235Ala missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102890 p.Phe51Leu missense_variant 0.12
PPE35 2169866 c.747G>C synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
folC 2746442 c.1156delG frameshift_variant 0.14
folC 2746762 c.837G>A synonymous_variant 0.11
thyA 3073806 c.666C>G synonymous_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
ddn 3986957 c.114C>T synonymous_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.45
embC 4239842 c.-21C>A upstream_gene_variant 0.27
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244899 p.Thr556Met missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0