TB-Profiler result

Run: ERR4812921
Summary

Run ID: ERR4812921

Sample name:

Date: 01-04-2023 12:25:29

Number of reads: 651000

Percentage reads mapped: 97.42

Strain: lineage4.3.3

Drug-resistance: HR-TB

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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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 5383 p.Glu48Asp missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7977 p.Pro226Thr missense_variant 0.17
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8826 p.Asp509Asn missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9689 c.2388G>T synonymous_variant 0.11
mshA 576566 p.Arg407Trp missense_variant 0.12
ccsA 620750 p.Trp287Leu missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765062 p.Ile565Val missense_variant 0.14
rpoC 765213 p.Pro615Leu missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781479 c.-81G>T upstream_gene_variant 0.15
rpsL 781896 p.Ala113Ser missense_variant 0.11
fbiC 1303474 p.Leu182Met missense_variant 0.15
fbiC 1304564 p.Thr545Ile missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918247 p.Arg103Leu missense_variant 0.22
ndh 2101705 c.1338C>A synonymous_variant 0.17
katG 2154816 c.1296C>A synonymous_variant 0.13
katG 2155494 c.618C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518562 p.Ala150Ser missense_variant 0.12
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715154 p.Gly60Val missense_variant 0.12
eis 2715479 c.-147C>T upstream_gene_variant 0.12
folC 2747378 p.Gly74Val missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087435 p.Gln206Lys missense_variant 0.11
Rv3083 3448854 c.351C>T synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475317 c.1311C>T synonymous_variant 0.18
fprA 3475376 c.1370G>T stop_lost&splice_region_variant 0.15
alr 3841177 p.Leu82Met missense_variant 0.12
ddn 3987003 p.Arg54Gly missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039293 p.Gly471Asp missense_variant 0.11
embC 4240907 p.Leu349Met missense_variant 0.11
embC 4241175 p.Ser438Phe missense_variant 0.11
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243958 c.726G>A synonymous_variant 0.14
embA 4244105 c.873C>T synonymous_variant 0.17
embA 4245832 p.Pro867Leu missense_variant 0.22
embA 4246150 p.Ser973Leu missense_variant 0.13
embA 4246262 p.Asp1010Glu missense_variant 0.14
embA 4246374 p.Gly1048Trp missense_variant 0.13
aftB 4267119 p.Ala573Glu missense_variant 0.11
aftB 4267385 c.1452C>T synonymous_variant 0.14
aftB 4267416 p.Pro474Leu missense_variant 0.15
aftB 4268036 p.Trp267* stop_gained 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407973 p.Val77Gly missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408303 c.-101C>T upstream_gene_variant 0.15