TB-Profiler result

Run: ERR2228998
Summary

Run ID: ERR2228998

Sample name:

Date: 31-03-2023 16:29:55

Number of reads: 568685

Percentage reads mapped: 99.6

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 576579 p.Gly411Val missense_variant 0.12
rpoB 761940 p.Asn712Asp missense_variant 0.18
rpoC 765452 p.Ala695Ser missense_variant 0.11
rpoC 766612 c.3243C>G synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777128 c.1353A>G synonymous_variant 0.11
mmpL5 777302 p.Ile393Met missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1407357 c.-17A>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rpsA 1834210 c.669C>T synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.17
PPE35 2167967 c.2646A>C synonymous_variant 0.17
PPE35 2168720 c.1893C>T synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714937 c.396G>T synonymous_variant 0.14
ald 3087004 p.Asp62Val missense_variant 0.11
whiB7 3568849 c.-170C>A upstream_gene_variant 0.17
rpoA 3877745 p.Asp255Asn missense_variant 0.12
clpC1 4039409 c.1296T>G synonymous_variant 0.29
clpC1 4039526 c.1179G>C synonymous_variant 0.14
clpC1 4039530 p.Asp392Ala missense_variant 0.21
clpC1 4039645 p.His354Asp missense_variant 0.2
clpC1 4039654 p.Thr351Ser missense_variant 0.12
clpC1 4039960 p.Thr249Ala missense_variant 0.1
embC 4241158 c.1296T>C synonymous_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246536 p.Arg8His missense_variant 0.17
embB 4249391 p.Trp960Gly missense_variant 0.17
ethR 4327045 c.-504G>A upstream_gene_variant 0.13
ethR 4328102 c.555_560delGTCATT disruptive_inframe_deletion 0.12
ethR 4328111 p.Ala188Gly missense_variant 0.12
ethR 4328113 c.565_566insAATGAC stop_gained&disruptive_inframe_insertion 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