TB-Profiler result

Run: SRR4037885
Summary

Run ID: SRR4037885

Sample name:

Date: 04-04-2023 07:44:39

Number of reads: 810077

Percentage reads mapped: 99.7

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 6806 p.Arg523Cys missense_variant 0.4
gyrB 6839 p.Asp534Asn missense_variant 0.5
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
rpoC 764405 c.1036A>C synonymous_variant 0.12
rpoC 764966 p.Asn533Asp missense_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765091 p.Leu574Phe missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776199 p.Thr761Ile missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801297 c.489C>T synonymous_variant 0.15
fbiC 1303011 c.82delC frameshift_variant 0.11
fbiC 1305301 p.Leu791Phe missense_variant 0.11
embR 1416887 p.Arg154Leu missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472737 n.892C>T non_coding_transcript_exon_variant 0.4
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.5
inhA 1673401 c.-801G>A upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170488 p.Ala42Val missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289812 c.-571G>T upstream_gene_variant 0.12
pncA 2289987 c.-746C>T upstream_gene_variant 0.11
ahpC 2726338 p.Val49Gly missense_variant 0.33
folC 2747315 p.Arg95Gln missense_variant 0.17
thyA 3073806 c.666C>G synonymous_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.22
Rv3236c 3612524 p.Ala198Val missense_variant 0.17
rpoA 3878304 c.204G>T synonymous_variant 0.2
ddn 3987019 p.Pro59Gln missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240140 p.Gly93Val missense_variant 0.13
embC 4241490 p.Ala543Val missense_variant 0.11
embC 4241965 c.2105delG frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242817 p.Trp985* stop_gained 0.13
embA 4243190 c.-43G>A upstream_gene_variant 0.18
embB 4248005 c.1495delC frameshift_variant 0.11
embB 4249397 p.Ala962Pro missense_variant 0.17
aftB 4267566 p.Leu424Gln missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0