TB-Profiler result

Run: SRR2101732
Summary

Run ID: SRR2101732

Sample name:

Date: 03-04-2023 23:53:03

Number of reads: 262051

Percentage reads mapped: 99.51

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 9304 p.Gly668Asp missense_variant 1.0
mshA 576736 c.1389G>A synonymous_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766180 c.2811C>T synonymous_variant 0.18
rpoC 767067 p.Leu1233Pro missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779352 c.-872C>T upstream_gene_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781435 c.-125G>C upstream_gene_variant 1.0
Rv1258c 1406754 p.Ala196Asp missense_variant 0.17
Rv1258c 1407274 p.Asp23Tyr missense_variant 0.2
embR 1416959 p.Arg130Gln missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472577 n.732G>A non_coding_transcript_exon_variant 0.12
rrl 1474923 n.1266G>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167731 p.Phe961Ser missense_variant 0.14
PPE35 2168574 p.Ala680Asp missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518252 c.138C>A synonymous_variant 0.18
ahpC 2726727 p.Arg179Gly missense_variant 0.11
ribD 2987309 c.471G>T synonymous_variant 0.25
thyX 3067729 p.Leu73Ile missense_variant 0.11
thyA 3074438 p.Leu12Val missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641775 p.Glu81* stop_gained 0.22
alr 3841288 p.Ile45Phe missense_variant 0.12
ddn 3987186 p.Thr115Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244859 p.Gly543Trp missense_variant 0.67
embA 4245732 p.Pro834Thr missense_variant 0.18
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249612 p.Asn1033Lys missense_variant 1.0
ubiA 4269101 p.Gly245Trp missense_variant 0.13
ethA 4327394 p.Cys27Tyr missense_variant 1.0
ethR 4327960 c.414delG frameshift_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407798 p.Val135Gly missense_variant 1.0