TB-Profiler result

Run: SRR4037749
Summary

Run ID: SRR4037749

Sample name:

Date: 04-04-2023 07:38:04

Number of reads: 419930

Percentage reads mapped: 99.68

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.98
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 8330 c.1029C>A synonymous_variant 0.29
gyrA 9138 p.Gln613Glu missense_variant 1.0
gyrA 9270 p.Asp657Asn missense_variant 0.5
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777091 p.Val464Leu missense_variant 0.29
mmpL5 777416 c.1065G>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781469 c.-91C>T upstream_gene_variant 0.18
atpE 1461155 c.111C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473317 n.1472G>A non_coding_transcript_exon_variant 0.13
inhA 1673363 c.-839G>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.14
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2222202 c.963C>T synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.67
Rv2752c 3066175 p.Pro6Arg missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642121 c.590_598delAGATCGCCG disruptive_inframe_deletion 0.22
clpC1 4040054 c.651G>A synonymous_variant 0.15
clpC1 4040820 c.-116G>A upstream_gene_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243951 p.Tyr240Phe missense_variant 0.67
embB 4248073 c.1560C>A synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0