TB-Profiler result

Run: ERR4815163
Summary

Run ID: ERR4815163

Sample name:

Date: 01-04-2023 13:42:32

Number of reads: 441699

Percentage reads mapped: 99.39

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
gyrA 8569 p.Glu423Ala missense_variant 0.29
ccsA 620748 c.858T>G synonymous_variant 0.38
rpoB 759620 c.-187A>C upstream_gene_variant 0.31
rpoB 761152 p.Leu449Gln missense_variant 0.17
rpoB 763302 p.Ala1166Thr missense_variant 0.11
rpoC 763644 p.Met92Thr missense_variant 0.15
rpoC 766511 p.Asp1048Asn missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777386 c.1095C>T synonymous_variant 0.25
mmpL5 777927 p.Tyr185Cys missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303773 c.843C>T synonymous_variant 0.12
embR 1416790 c.558G>T synonymous_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474489 n.832T>G non_coding_transcript_exon_variant 0.29
rrl 1474563 n.906G>A non_coding_transcript_exon_variant 1.0
fabG1 1673416 c.-24G>A upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.4
tlyA 1918286 p.Gly116Asp missense_variant 0.25
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289315 c.-74A>G upstream_gene_variant 0.13
Rv3236c 3611988 p.Leu377Val missense_variant 0.4
Rv3236c 3612997 c.120T>G synonymous_variant 0.5
rpoA 3878236 p.Glu91Val missense_variant 0.1
rpoA 3878306 c.201delC frameshift_variant 0.11
clpC1 4038237 p.Thr823Ile missense_variant 0.13
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338488 p.Cys12Arg missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0