TB-Profiler result

Run: ERR2229063
Summary

Run ID: ERR2229063

Sample name:

Date: 31-03-2023 16:35:10

Number of reads: 1472779

Percentage reads mapped: 99.4

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 0.38
mshA 576331 c.984G>A synonymous_variant 0.12
ccsA 620034 c.144C>T synonymous_variant 0.15
rpoC 765329 p.Ser654Gly missense_variant 0.17
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
fbiC 1304226 c.1296C>A synonymous_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
fabG1 1673380 c.-60C>G upstream_gene_variant 0.15
tlyA 1917835 c.-105A>G upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103211 c.-169A>G upstream_gene_variant 0.12
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2167965 p.Ala883Gly missense_variant 0.17
PPE35 2167967 c.2646A>C synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.14
PPE35 2169281 c.1332T>G synonymous_variant 0.19
PPE35 2170048 p.Leu189Val missense_variant 0.56
PPE35 2170053 p.Thr187Ser missense_variant 0.59
PPE35 2170147 p.Ser156Ala missense_variant 0.15
PPE35 2170157 p.Ala152Ser missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.2
kasA 2519143 c.1029G>C synonymous_variant 0.2
fprA 3474905 p.Gly300Glu missense_variant 0.12
whiB7 3568428 c.252A>G synonymous_variant 0.22
Rv3236c 3612243 p.Pro292Ala missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.21
rpoA 3878682 c.-175A>G upstream_gene_variant 0.12
embC 4240413 p.Leu184Gln missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244291 c.1059G>A synonymous_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.27
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.53
embB 4246556 p.Ala15Pro missense_variant 0.53
embB 4246563 p.Leu17Trp missense_variant 0.36
embB 4246567 c.54G>T synonymous_variant 0.33
embB 4247125 c.612G>A synonymous_variant 0.12
aftB 4269021 c.-185C>T upstream_gene_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