TB-Profiler result

Run: ERR2228948

Summary

Run ID: ERR2228948

Sample name:

Date: 31-03-2023 16:27:38

Number of reads: 1012551

Percentage reads mapped: 99.42

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
ccsA 619805 c.-86C>A upstream_gene_variant 0.15
ccsA 620625 c.735A>T synonymous_variant 0.22
rpoB 761197 p.Leu464Arg missense_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.14
mmpL5 777128 c.1353A>G synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303985 p.Asp352Gly missense_variant 0.14
Rv1258c 1406178 p.Val388Glu missense_variant 0.18
atpE 1460955 c.-90T>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155191 c.921A>C synonymous_variant 0.11
katG 2155321 p.Ala264Val missense_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 0.97
PPE35 2169029 p.Asp528Glu missense_variant 0.17
PPE35 2169269 c.1344A>G synonymous_variant 0.12
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169278 c.1335T>C synonymous_variant 0.1
PPE35 2169281 c.1332T>G synonymous_variant 0.1
PPE35 2170048 p.Leu189Val missense_variant 0.32
PPE35 2170053 p.Thr187Ser missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290163 c.-922T>A upstream_gene_variant 0.2
pepQ 2859956 p.Thr155Pro missense_variant 0.27
Rv2752c 3064528 p.Val555Gly missense_variant 0.17
thyX 3067540 p.Ala136Thr missense_variant 0.22
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3642121 p.Asp196Ala missense_variant 0.22
alr 3841546 c.-126C>A upstream_gene_variant 0.14
rpoA 3878490 c.18C>G synonymous_variant 0.3
embC 4241597 p.Met579Leu missense_variant 0.2
embC 4241854 c.1992A>G synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244197 p.Val322Gly missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.15
embB 4246556 p.Ala15Pro missense_variant 0.15
embB 4247039 p.Phe176Val missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0