TB-Profiler result

Run: ERR2229300
Summary

Run ID: ERR2229300

Sample name:

Date: 31-03-2023 16:59:05

Number of reads: 1195976

Percentage reads mapped: 99.04

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
mshA 576108 p.Ala254Gly missense_variant 0.25
rpoC 766391 p.Thr1008Pro missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776720 p.Trp587* stop_gained 0.12
mmpL5 777119 p.His454Gln missense_variant 0.18
mmpL5 777122 c.1359C>T synonymous_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473833 n.176G>T non_coding_transcript_exon_variant 0.18
rrl 1473920 n.263G>A non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.18
rpsA 1834028 p.Pro163Thr missense_variant 0.14
rpsA 1834033 p.Tyr164* stop_gained 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154270 c.1842G>T synonymous_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.29
PPE35 2170147 p.Ser156Ala missense_variant 0.21
PPE35 2170157 c.456G>T synonymous_variant 0.16
PPE35 2170392 p.Gly74Ala missense_variant 0.18
PPE35 2170400 c.213G>C synonymous_variant 0.17
Rv1979c 2221759 p.Arg469Gln missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073942 p.Asn177Ser missense_variant 0.11
whiB7 3568428 c.252A>G synonymous_variant 0.23
Rv3236c 3612796 c.321G>T synonymous_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.28
clpC1 4039031 c.1674T>C synonymous_variant 0.12
clpC1 4039829 p.Leu292Ile missense_variant 0.13
embC 4241211 p.Leu450Pro missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267828 p.Arg337Trp missense_variant 0.15
aftB 4267866 p.Leu324Arg missense_variant 0.2
aftB 4269471 c.-635C>G upstream_gene_variant 0.14
ethA 4326044 p.Gly477Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0