TB-Profiler result

Run: ERR2228942
Summary

Run ID: ERR2228942

Sample name:

Date: 31-03-2023 16:27:19

Number of reads: 827532

Percentage reads mapped: 99.52

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 0.99
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 6072 p.Phe278Tyr missense_variant 0.33
gyrA 7362 p.Glu21Gln missense_variant 1.0
ccsA 619976 p.Leu29Arg missense_variant 0.2
rpoB 761289 p.Ser495Ala missense_variant 0.17
rpoB 762664 p.Leu953Arg missense_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407499 c.-159G>T 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
ndh 2102962 c.81A>T synonymous_variant 0.2
PPE35 2167865 c.2748G>C synonymous_variant 0.2
PPE35 2167868 c.2745A>C synonymous_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169029 p.Asp528Glu missense_variant 0.3
PPE35 2169605 c.1008T>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290079 c.-838T>A upstream_gene_variant 0.25
kasA 2518572 p.Val153Gly missense_variant 0.25
kasA 2518579 c.465T>G synonymous_variant 0.23
folC 2747267 p.Asp111Ala missense_variant 0.4
Rv2752c 3065261 p.Pro311Thr missense_variant 0.2
whiB7 3568793 c.-114C>A upstream_gene_variant 0.21
rpoA 3877861 p.Val216Gly missense_variant 0.29
clpC1 4039820 c.885T>C synonymous_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247039 p.Phe176Val missense_variant 0.3
aftB 4267975 p.Ser288Ala missense_variant 0.5
ethA 4327248 p.Ala76Ser missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0