TB-Profiler result

Run: ERR495095
Summary

Run ID: ERR495095

Sample name:

Date: 01-04-2023 21:38:09

Number of reads: 1934550

Percentage reads mapped: 99.65

Strain: lineage4.1.1.3

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8090 c.789C>A synonymous_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761192 c.1386C>A synonymous_variant 0.67
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766406 p.Arg1013Cys missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476136 n.2479A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101827 p.Gly406Arg missense_variant 0.17
ndh 2102678 p.Gly122Val missense_variant 0.13
katG 2153937 c.2175C>T synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289560 c.-319T>A upstream_gene_variant 0.13
folC 2747747 c.-149C>A upstream_gene_variant 0.15
Rv2752c 3065510 p.Gly228Ser missense_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448616 p.Arg38Leu missense_variant 0.18
Rv3083 3448986 c.483C>A synonymous_variant 0.17
Rv3083 3449142 c.639C>A synonymous_variant 0.18
Rv3083 3449315 p.Trp271Leu missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641359 p.Gly273Arg missense_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.17
clpC1 4039321 p.Ala462Thr missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4267701 p.Trp379Leu missense_variant 0.17
ubiA 4269046 p.Ala263Val missense_variant 0.17
aftB 4269243 c.-407T>C upstream_gene_variant 0.2
ethR 4327822 p.Glu92Lys missense_variant 0.2
ethR 4327857 p.Trp103Cys missense_variant 0.2
ethR 4327994 p.Thr149Met missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0