TB-Profiler result

Run: ERR9027249
Summary

Run ID: ERR9027249

Sample name:

Date: 02-04-2023 09:19:46

Number of reads: 317103

Percentage reads mapped: 99.5

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 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 6346 c.-956C>T upstream_gene_variant 1.0
gyrB 7158 c.1931_1933delCCG disruptive_inframe_deletion 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9273 p.Glu658Lys missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491247 c.465C>T synonymous_variant 1.0
mshA 575799 p.Val151Ala missense_variant 0.15
mshA 576265 c.918G>C synonymous_variant 0.17
rpoC 763184 c.-186C>T upstream_gene_variant 1.0
rpoC 765202 c.1833C>G synonymous_variant 0.11
rpoC 765308 p.Glu647Lys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778805 p.Ser34Tyr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303419 c.489C>T synonymous_variant 0.22
fbiC 1303471 p.Val181Leu missense_variant 0.17
Rv1258c 1406710 c.630delC frameshift_variant 0.13
Rv1258c 1407292 c.49C>T synonymous_variant 0.12
atpE 1460899 c.-146T>C upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471857 n.12G>T non_coding_transcript_exon_variant 0.22
rrl 1476188 n.2531C>T non_coding_transcript_exon_variant 0.29
rrl 1476277 n.2620G>A non_coding_transcript_exon_variant 0.12
tlyA 1917803 c.-137T>A upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154125 p.Asp663Asn missense_variant 0.12
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2170561 p.Gly18Trp missense_variant 0.25
Rv1979c 2223173 c.-9C>A upstream_gene_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726195 c.5delC frameshift_variant 0.11
folC 2747157 p.Ala148Thr missense_variant 0.12
Rv2752c 3064890 c.1302C>T synonymous_variant 0.2
Rv2752c 3065236 p.Ser319* stop_gained 0.11
Rv2752c 3065830 c.361delA frameshift_variant 0.18
thyX 3067820 c.126C>T synonymous_variant 0.12
ald 3086742 c.-78A>C upstream_gene_variant 0.94
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448896 c.393C>T synonymous_variant 0.4
Rv3083 3449736 c.1233G>A synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568668 c.12G>A synonymous_variant 0.17
fbiA 3641459 p.Val306Glu missense_variant 0.17
embC 4240467 p.Thr202Ile missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244515 p.Ala428Val missense_variant 0.14
embA 4245226 p.His665Arg missense_variant 0.2
embB 4248029 p.Thr506Ala missense_variant 0.12
embB 4249533 p.Ala1007Val missense_variant 0.11
embB 4249594 c.3081G>A synonymous_variant 1.0
aftB 4267407 p.Lys477Arg missense_variant 0.12
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338473 c.48delG frameshift_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408465 c.-263C>A upstream_gene_variant 0.12