TB-Profiler result

Run: ERR2229246
Summary

Run ID: ERR2229246

Sample name:

Date: 31-03-2023 16:52:24

Number of reads: 885111

Percentage reads mapped: 99.19

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 6285 c.1047delT frameshift_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576089 p.Ala254Gly missense_variant 0.5
rpoB 759619 c.-188C>T upstream_gene_variant 0.17
rpoC 763921 c.552G>A synonymous_variant 0.18
rpoC 764327 p.Ile320Leu missense_variant 0.29
mmpL5 775617 p.Pro955Leu missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776009 c.2472A>G synonymous_variant 0.22
mmpL5 776018 c.2463G>C synonymous_variant 0.22
mmpL5 776417 c.2064G>C synonymous_variant 0.12
mmpL5 777157 c.1324C>A synonymous_variant 0.19
mmpL5 777164 c.1317C>T synonymous_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474049 n.392G>A non_coding_transcript_exon_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.14
rpsA 1834304 p.Gly255Cys missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101696 c.1347C>T synonymous_variant 0.14
ndh 2101722 c.1321C>A synonymous_variant 0.13
PPE35 2167760 c.2853G>A synonymous_variant 0.2
PPE35 2167814 c.2799C>T synonymous_variant 0.14
PPE35 2167965 p.Ala883Gly missense_variant 0.16
PPE35 2167967 c.2646A>C synonymous_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169717 p.Asn299Ile missense_variant 0.17
PPE35 2169902 c.711G>C synonymous_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.27
PPE35 2170053 p.Thr187Ser missense_variant 0.3
PPE35 2170147 p.Ser156Ala missense_variant 0.16
PPE35 2170392 p.Gly74Ala missense_variant 0.14
PPE35 2170400 c.213G>C synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518202 p.Glu30Lys missense_variant 0.13
kasA 2518535 p.Ala141Ser missense_variant 0.14
folC 2746267 c.1332C>A synonymous_variant 0.18
folC 2747406 p.Pro65Thr missense_variant 0.12
folC 2747694 c.-96C>T upstream_gene_variant 0.15
ribD 2986679 c.-160G>A upstream_gene_variant 0.12
thyX 3067354 p.Met198Leu missense_variant 0.29
thyX 3067427 c.519G>A synonymous_variant 0.29
ald 3087336 p.Val173Leu missense_variant 0.13
fprA 3474792 c.786G>T synonymous_variant 0.2
Rv3236c 3612827 p.Ile97Thr missense_variant 0.17
fbiA 3640385 c.-158T>C upstream_gene_variant 0.12
fbiB 3641919 p.Ala129Thr missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.34
rpoA 3878440 p.Ile23Thr missense_variant 0.11
clpC1 4038433 c.2272C>T synonymous_variant 0.15
clpC1 4039022 c.1683A>G synonymous_variant 0.12
clpC1 4039139 c.1566G>A synonymous_variant 0.12
clpC1 4039161 p.His515Gly missense_variant 0.13
clpC1 4039169 p.Glu512Asp missense_variant 0.18
embC 4241342 p.Ala494Pro missense_variant 0.11
embC 4241688 p.Thr609Lys missense_variant 0.17
embC 4241776 p.Asn638Lys missense_variant 0.14
embC 4242067 c.2205G>T synonymous_variant 0.18
embC 4242387 p.Asn842Thr missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244434 p.Ala401Val missense_variant 0.25
embA 4245738 p.Arg836Cys missense_variant 0.25
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
embB 4247028 p.Leu172Arg missense_variant 0.33
embB 4248843 p.Leu777Ser missense_variant 0.11
embB 4248925 c.2415delA frameshift_variant 0.15
aftB 4267787 c.1050G>A synonymous_variant 0.18
ubiA 4269763 p.Arg24Leu missense_variant 0.12
ethA 4327629 c.-156C>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0