TB-Profiler result

Run: ERR2229570
Summary

Run ID: ERR2229570

Sample name:

Date: 31-03-2023 17:19:22

Number of reads: 885583

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
fgd1 491484 c.702C>A synonymous_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.26
mshA 576287 c.940C>A synonymous_variant 0.12
rpoB 761617 p.Asn604Ile missense_variant 0.14
rpoC 762410 c.-960T>C upstream_gene_variant 0.11
rpoC 763906 c.537C>T synonymous_variant 0.14
rpoC 767031 p.Leu1221Gln missense_variant 0.15
rpoC 767037 p.Ala1223Val missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801022 p.Ala72Thr missense_variant 0.18
fbiC 1303649 p.Val240Glu missense_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303983 c.1053C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673552 p.Asp38Val missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169293 c.1320T>C synonymous_variant 0.11
PPE35 2169397 p.Gly406Ser missense_variant 0.17
PPE35 2169403 p.Thr404Pro missense_variant 0.15
PPE35 2169902 p.Leu237Phe missense_variant 0.17
PPE35 2169910 p.Asn235Tyr missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746628 p.Asp324Val missense_variant 0.18
ribD 2987046 p.Val70Ile missense_variant 0.12
thyA 3074381 c.90delC frameshift_variant 0.13
clpC1 4040097 p.Val203Glu missense_variant 0.14
clpC1 4040144 c.561G>C synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243612 p.Ala127Asp missense_variant 0.12
embA 4244319 p.Thr363Ser missense_variant 0.13
embB 4249008 c.2496delG frameshift_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