TB-Profiler result

Run: ERR2229040
Summary

Run ID: ERR2229040

Sample name:

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

Number of reads: 669760

Percentage reads mapped: 99.28

Strain: lineage4

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
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 5920 c.681C>T synonymous_variant 0.15
gyrB 7155 p.Asp639Val missense_variant 0.17
gyrB 7160 p.Ala641Ser missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491313 c.531C>G synonymous_variant 0.29
rpoB 759983 c.177C>T synonymous_variant 0.13
rpoB 762648 p.Asp948Tyr missense_variant 0.17
rpoC 762857 c.-513C>T upstream_gene_variant 0.12
rpoC 763419 p.Ala17Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776286 p.Ile732Thr missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781599 p.Asp14Asn missense_variant 0.14
fbiC 1302819 c.-112G>T upstream_gene_variant 0.13
fbiC 1303223 p.Cys98Ser missense_variant 0.11
fbiC 1303356 p.Glu142Asp missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304707 p.Val593Phe missense_variant 0.33
Rv1258c 1406260 p.Pro361Thr missense_variant 0.15
Rv1258c 1406721 p.Gly207Val missense_variant 0.15
Rv1258c 1407099 p.Leu81Pro missense_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
fabG1 1673346 c.-94C>G upstream_gene_variant 0.15
fabG1 1673349 c.-91G>C upstream_gene_variant 0.14
fabG1 1673357 c.-83G>A upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.13
fabG1 1673361 c.-79C>G upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.32
fabG1 1673855 p.Gly139Val missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.17
PPE35 2167878 p.Ser912Asn missense_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.29
PPE35 2169269 c.1344A>G synonymous_variant 0.2
PPE35 2169272 c.1341C>G synonymous_variant 0.2
PPE35 2169278 c.1335T>C synonymous_variant 0.25
PPE35 2169281 c.1332T>G synonymous_variant 0.27
PPE35 2170048 p.Leu189Val missense_variant 0.69
PPE35 2170053 p.Thr187Ser missense_variant 0.67
Rv1979c 2222755 p.Lys137Arg missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.21
kasA 2518609 p.Met165Ile missense_variant 0.21
eis 2714664 p.Tyr223* stop_gained 0.18
ahpC 2726275 p.Ala28Val missense_variant 0.12
ribD 2987440 p.Thr201Lys missense_variant 0.12
fbiD 3339374 p.Glu86Ala missense_variant 0.25
fprA 3474724 p.Ala240Thr missense_variant 0.15
Rv3236c 3612946 p.Phe57Leu missense_variant 0.13
fbiB 3640818 c.-717G>A upstream_gene_variant 0.12
clpC1 4038788 c.1917G>A synonymous_variant 0.12
clpC1 4039682 c.1023C>T synonymous_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.12
clpC1 4039730 c.975C>G synonymous_variant 0.21
clpC1 4039829 p.Leu292Ile missense_variant 0.18
clpC1 4040144 c.561G>C synonymous_variant 0.18
embC 4241838 p.Trp659Leu missense_variant 0.18
embC 4241945 p.Arg695Trp missense_variant 0.13
embA 4242331 c.-902A>G upstream_gene_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243462 p.Ser77Leu missense_variant 0.12
embA 4244091 p.Ala287Thr missense_variant 0.29
embA 4245419 c.2187G>T synonymous_variant 0.14
embA 4245610 p.Val793Asp missense_variant 0.2
embA 4245990 p.Pro920Thr missense_variant 0.29
embA 4246419 p.Leu1063Met missense_variant 0.18
aftB 4268731 c.106C>A synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408443 c.-241C>A upstream_gene_variant 0.12
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0