TB-Profiler result

Run: SRR4035961
Summary

Run ID: SRR4035961

Sample name:

Date: 04-04-2023 07:24:21

Number of reads: 493145

Percentage reads mapped: 99.64

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 760713 p.Ala303Thr missense_variant 0.5
rpoB 761837 c.2031C>T synonymous_variant 0.25
rpoC 763808 p.Glu147Lys missense_variant 0.15
rpoC 763930 p.Glu187Asp missense_variant 0.33
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406849 p.Met164Ile missense_variant 0.22
embR 1416775 c.573C>A synonymous_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169439 c.1173dupC frameshift_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859361 p.Glu353Gly missense_variant 0.22
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074395 c.76delA frameshift_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474083 p.Ala26Asp missense_variant 0.29
fbiA 3640978 p.Thr146Ser missense_variant 0.12
fbiB 3641795 c.261G>T synonymous_variant 0.22
alr 3840889 p.Ala178Thr missense_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038700 p.Gly669Ser missense_variant 0.17
embC 4241760 p.Ser633Leu missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244141 c.909G>A synonymous_variant 0.17
embB 4248052 c.1539G>A synonymous_variant 0.17
embB 4249357 c.2846_2851delTGGCCG disruptive_inframe_deletion 0.22
aftB 4266979 p.Gly620Trp missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407866 p.Glu113* stop_gained 0.18
gid 4408156 p.Leu16Arg missense_variant 1.0