TB-Profiler result

Run: ERR2229621
Summary

Run ID: ERR2229621

Sample name:

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

Number of reads: 976898

Percentage reads mapped: 97.93

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
gyrB 6804 p.Leu522Pro missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 575677 c.330C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777846 p.Phe212Ser missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801152 p.Thr115Met missense_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304087 p.Tyr386Cys missense_variant 0.15
atpE 1460922 c.-123C>G upstream_gene_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472196 n.351C>T non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
inhA 1674177 c.-25C>G upstream_gene_variant 0.12
inhA 1674405 p.Glu68Asp missense_variant 0.17
inhA 1674590 p.Met130Lys missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103050 c.-8A>G upstream_gene_variant 0.11
PPE35 2167965 p.Ala883Gly missense_variant 0.16
PPE35 2167967 c.2646A>C synonymous_variant 0.16
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169725 c.888T>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.33
Rv1979c 2222159 p.Leu336Met missense_variant 0.17
Rv1979c 2222982 c.183G>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288752 p.Ser164Thr missense_variant 0.12
folC 2747703 c.-105C>G upstream_gene_variant 0.15
pepQ 2859862 p.Asp186Ala missense_variant 0.25
pepQ 2860130 p.Phe97Val missense_variant 0.17
pepQ 2860146 c.273C>G synonymous_variant 0.18
Rv2752c 3065309 p.Met295Val missense_variant 0.2
fbiD 3339643 p.Val176Ile missense_variant 0.12
Rv3236c 3612899 c.217delC frameshift_variant 0.13
fbiB 3642018 c.485_489delATGCC frameshift_variant 0.3
fbiB 3642027 c.494delT frameshift_variant 0.27
fbiB 3642031 p.Gly166Ala missense_variant 0.25
fbiB 3642033 c.499_500insA frameshift_variant 0.25
fbiB 3642037 c.503_504insGGCAT frameshift_variant 0.23
fbiB 3642661 p.Ala376Gly missense_variant 0.1
rpoA 3878464 p.Thr15Ile missense_variant 0.12
clpC1 4039645 p.His354Asp missense_variant 0.17
clpC1 4039654 p.Thr351Ser missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245879 p.Asp883Tyr missense_variant 0.18
aftB 4267913 c.923delC frameshift_variant 0.15
ubiA 4269454 p.Val127Ala missense_variant 0.1
whiB6 4338261 c.261G>C synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407808 p.Asp132Val missense_variant 0.14
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0