TB-Profiler result

Run: ERR1950059

Summary

Run ID: ERR1950059

Sample name:

Date: 31-03-2023 15:38:50

Number of reads: 924905

Percentage reads mapped: 99.63

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
rpoC 764067 p.Gln233Arg missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775731 p.Asp917Gly missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303950 c.1020C>A synonymous_variant 0.12
fbiC 1304137 p.Ala403Ser missense_variant 0.16
fbiC 1304171 c.1243delG frameshift_variant 0.14
Rv1258c 1407520 c.-180A>T upstream_gene_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
rpsA 1834464 p.Gly308Val missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153949 c.2163G>A synonymous_variant 0.12
katG 2155187 p.Gly309Arg missense_variant 0.12
katG 2155616 p.Val166Phe missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169049 p.Ile522Phe missense_variant 0.23
PPE35 2169071 c.1542A>T synonymous_variant 0.27
PPE35 2169108 p.Asp502Val missense_variant 0.18
PPE35 2169144 p.Val490Glu missense_variant 0.2
PPE35 2169834 p.Gly260Val missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.22
PPE35 2170053 p.Thr187Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519196 p.Thr361Lys missense_variant 0.12
thyX 3067897 p.Phe17Val missense_variant 0.33
fbiD 3339316 p.Ala67Thr missense_variant 0.15
fprA 3474889 p.Val295Ile missense_variant 0.12
Rv3236c 3613192 c.-76G>A upstream_gene_variant 0.12
fbiB 3642248 c.714C>T synonymous_variant 0.14
clpC1 4040183 c.522C>T synonymous_variant 0.12
embC 4241573 p.Ile571Val missense_variant 0.14
embC 4241845 c.1987_1989delACC conservative_inframe_deletion 0.15
embC 4241988 p.Ala709Gly missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267656 p.Gly394Asp missense_variant 0.12
aftB 4267901 c.936G>A synonymous_variant 0.22
ubiA 4269245 p.His197Tyr missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0