TB-Profiler result

Run: SRR12199451
Summary

Run ID: SRR12199451

Sample name:

Date: 03-04-2023 06:41:12

Number of reads: 325947

Percentage reads mapped: 98.62

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
gyrA 6490 c.-812T>A upstream_gene_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 762034 p.Ser743Leu missense_variant 0.14
rpoB 762083 c.2277T>C synonymous_variant 0.22
rpoB 762086 c.2280G>C synonymous_variant 0.22
mmpL5 778236 p.Phe82Ser missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303288 p.Ser120Gly missense_variant 0.2
fbiC 1303803 c.873C>T synonymous_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673899 p.Ala154Ser missense_variant 0.33
inhA 1674961 p.Thr254Ala missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167856 p.Trp919* stop_gained 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.27
PPE35 2169272 c.1341C>G synonymous_variant 0.3
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.32
PPE35 2170294 p.Pro107Ser missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518809 p.Lys232Arg missense_variant 0.22
eis 2714175 c.1158C>T synonymous_variant 0.14
eis 2714603 p.Val244Leu missense_variant 0.25
whiB7 3568521 p.Leu53Phe missense_variant 0.25
whiB7 3568712 c.-33C>T upstream_gene_variant 0.15
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4240061 p.Phe67Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243534 p.Gly101Asp missense_variant 0.67
embA 4245916 p.Gln895Leu missense_variant 0.4
embA 4246043 p.Asp937Glu missense_variant 0.67
embB 4246770 p.Asp86Val missense_variant 0.33
embB 4249323 p.Ala937Glu missense_variant 0.5
aftB 4268412 p.Gly142Val missense_variant 0.18
ubiA 4269059 p.Ile259Val missense_variant 0.33
ethA 4327263 p.Gly71Arg missense_variant 0.22
whiB6 4338503 p.Ala7Thr missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407591 c.612C>T synonymous_variant 0.33
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0