TB-Profiler result

Run: SRR13861636
Summary

Run ID: SRR13861636

Sample name:

Date: 03-04-2023 09:36:48

Number of reads: 688686

Percentage reads mapped: 22.98

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
rpoB 761687 c.1881C>T synonymous_variant 0.11
rpoB 761690 c.1884G>C synonymous_variant 0.11
rpoB 761732 c.1926C>G synonymous_variant 0.14
rpoB 761735 c.1929C>G synonymous_variant 0.14
rpoB 761747 c.1941G>C synonymous_variant 0.14
rpoB 761750 c.1944G>C synonymous_variant 0.14
rpoC 762698 c.-672C>T upstream_gene_variant 1.0
rpoB 762958 p.Leu1051Pro missense_variant 1.0
rpsL 781868 c.309T>C synonymous_variant 0.12
rpsL 781898 c.339A>T synonymous_variant 0.12
rpsL 781916 c.357T>C synonymous_variant 0.13
rpsL 781929 p.Gly124Ser missense_variant 0.12
fbiC 1302962 p.Ala11Gly missense_variant 1.0
fbiC 1303706 p.Leu259Arg missense_variant 0.96
fbiC 1305381 c.2451G>C synonymous_variant 0.14
fbiC 1305384 c.2454G>T synonymous_variant 0.88
fbiC 1305393 c.2463T>C synonymous_variant 0.12
fbiC 1305405 c.2475A>G synonymous_variant 0.12
fbiC 1305411 c.2481C>T synonymous_variant 0.11
Rv1258c 1406724 p.Gln206Leu missense_variant 1.0
embR 1416800 p.Ala183Gly missense_variant 1.0
fabG1 1673153 c.-287C>G upstream_gene_variant 1.0
rpsA 1833555 p.Thr5Ser missense_variant 1.0
rpsA 1834073 p.Lys178* stop_gained 1.0
PPE35 2167669 p.Phe982Leu missense_variant 1.0
Rv2752c 3066234 c.-43G>A upstream_gene_variant 1.0
fbiB 3642276 c.743delC frameshift_variant 1.0
rpoA 3878111 p.Lys133Gln missense_variant 1.0
clpC1 4039517 c.1188C>G synonymous_variant 0.12
clpC1 4039526 c.1179G>C synonymous_variant 0.12
clpC1 4039547 c.1158C>G synonymous_variant 0.15
clpC1 4039553 c.1152C>G synonymous_variant 0.14
clpC1 4039562 c.1143C>G synonymous_variant 0.13
clpC1 4039576 p.Ala377Ser missense_variant 0.11
clpC1 4039586 c.1119G>C synonymous_variant 0.12
clpC1 4039610 c.1095G>C synonymous_variant 0.16
clpC1 4039616 c.1089G>C synonymous_variant 0.15
clpC1 4039622 c.1083C>G synonymous_variant 0.16
clpC1 4039682 c.1023C>G synonymous_variant 0.16
clpC1 4039685 c.1020C>T synonymous_variant 0.2
clpC1 4039694 c.1011G>C synonymous_variant 0.21
clpC1 4039724 c.981A>G synonymous_variant 0.21
clpC1 4039748 c.957G>C synonymous_variant 0.17
clpC1 4039751 c.954A>G synonymous_variant 0.16
clpC1 4039757 c.948A>G synonymous_variant 0.16
clpC1 4039760 c.945T>C synonymous_variant 0.15
clpC1 4039766 c.939T>C synonymous_variant 0.15
clpC1 4039769 c.936C>G synonymous_variant 0.15
clpC1 4039778 c.927A>G synonymous_variant 0.15
clpC1 4039781 c.924G>C synonymous_variant 0.15
clpC1 4039787 c.916_918delTCGinsAGC synonymous_variant 0.16
clpC1 4039793 c.912C>G synonymous_variant 0.16
clpC1 4039817 c.888A>T synonymous_variant 0.19
clpC1 4039820 c.885T>G synonymous_variant 0.19
clpC1 4039831 c.874T>C synonymous_variant 0.14
clpC1 4039832 c.873C>G synonymous_variant 0.14
embA 4242703 c.-530C>T upstream_gene_variant 1.0
embB 4249144 c.2631G>C synonymous_variant 1.0