TB-Profiler result

Run: SRR13861660
Summary

Run ID: SRR13861660

Sample name:

Date: 03-04-2023 09:37:22

Number of reads: 86511

Percentage reads mapped: 8.66

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
gyrB 5532 c.295dupG frameshift_variant 1.0
gyrB 5832 p.Ala198Gly missense_variant 1.0
gyrA 6976 c.-326A>G upstream_gene_variant 1.0
ccsA 619735 c.-156G>C upstream_gene_variant 1.0
ccsA 620100 c.210G>T synonymous_variant 1.0
rpoB 759609 c.-198C>A upstream_gene_variant 1.0
rpoB 761873 c.2067A>G synonymous_variant 0.2
rpoB 761885 c.2079T>C synonymous_variant 0.2
rpoB 761891 c.2085G>C synonymous_variant 0.25
rpoB 762008 c.2202C>G synonymous_variant 0.22
rpoC 763050 c.-320C>T upstream_gene_variant 1.0
rpoC 765613 p.His748Gln missense_variant 0.67
rpoC 765625 c.2256C>G synonymous_variant 1.0
rpoC 765628 c.2259G>C synonymous_variant 1.0
rpoC 765631 p.Asp754Glu missense_variant 1.0
rpoC 765658 c.2289C>T synonymous_variant 1.0
rpoC 765700 c.2331T>C synonymous_variant 0.67
rpoC 765734 c.2365T>C synonymous_variant 0.67
rpoC 765739 c.2370G>C synonymous_variant 0.67
rpoC 765751 c.2382C>G synonymous_variant 0.75
rpoC 765753 p.Asp795Ala missense_variant 0.67
rpoC 765784 c.2415C>G synonymous_variant 0.67
rpoC 765796 c.2427C>T synonymous_variant 0.67
rpoC 765811 c.2442T>C synonymous_variant 0.67
rpoC 765814 c.2445A>G synonymous_variant 0.67
rpoC 765826 c.2457T>C synonymous_variant 1.0
rpoC 765835 c.2466C>T synonymous_variant 0.67
rpoC 765883 c.2514C>G synonymous_variant 0.67
rpoC 765886 c.2517C>G synonymous_variant 0.67
mmpL5 776796 p.Val562Ala missense_variant 1.0
mmpS5 778642 p.Trp88* stop_gained 1.0
fbiC 1304703 c.1773C>G synonymous_variant 0.67
fbiC 1304715 c.1785G>C synonymous_variant 0.67
fbiC 1304724 c.1794A>G synonymous_variant 0.67
fbiC 1304727 c.1797A>G synonymous_variant 0.67
fbiC 1304742 c.1812T>C synonymous_variant 0.67
fbiC 1304748 c.1818T>C synonymous_variant 0.67
fbiC 1304754 c.1824G>A synonymous_variant 0.67
fbiC 1304757 c.1827A>G synonymous_variant 0.67
Rv1258c 1407009 p.Ala111Asp missense_variant 1.0
rrl 1474991 n.1334T>C non_coding_transcript_exon_variant 0.29
inhA 1674654 c.453G>C synonymous_variant 0.4
inhA 1674693 c.492C>G synonymous_variant 0.4
inhA 1674741 c.540C>G synonymous_variant 0.33
inhA 1674742 p.Lys181Pro missense_variant 0.33
inhA 1674745 p.Tyr182His missense_variant 0.33
inhA 1674756 c.555T>C synonymous_variant 0.33
inhA 1674771 c.570C>G synonymous_variant 0.33
inhA 1674774 c.573A>G synonymous_variant 0.4
inhA 1674780 c.579T>G synonymous_variant 0.4
inhA 1674786 c.585G>C synonymous_variant 0.4
inhA 1674829 p.Glu210Gln missense_variant 0.5
inhA 1674891 p.Trp230Cys missense_variant 1.0
tlyA 1918625 p.Pro229Leu missense_variant 1.0
Rv1979c 2222721 c.444G>C synonymous_variant 1.0
kasA 2518672 c.558G>C synonymous_variant 0.5
kasA 2518687 c.573C>T synonymous_variant 0.4
ahpC 2726345 p.Phe51Leu missense_variant 1.0
Rv2752c 3067095 c.-904G>C upstream_gene_variant 1.0
fprA 3474133 p.Pro43Thr missense_variant 1.0
alr 3840783 c.637_638insT frameshift_variant 1.0
rpoA 3877587 c.921A>G synonymous_variant 0.67
rpoA 3877613 p.Ile299Val missense_variant 1.0
rpoA 3877638 c.870T>C synonymous_variant 1.0
rpoA 3877668 c.840A>G synonymous_variant 1.0
rpoA 3877677 p.Ala277Ser missense_variant 1.0
rpoA 3877680 c.828G>C synonymous_variant 1.0
rpoA 3877686 c.822A>G synonymous_variant 1.0
rpoA 3877692 c.816G>C synonymous_variant 1.0
rpoA 3877704 c.804G>T synonymous_variant 1.0
rpoA 3877743 c.765T>C synonymous_variant 0.67
rpoA 3877764 c.744C>G synonymous_variant 0.67
rpoA 3877770 c.738A>G synonymous_variant 0.67
rpoA 3877776 c.732T>C synonymous_variant 0.67
rpoA 3877782 c.726T>C synonymous_variant 0.67
clpC1 4038326 p.Glu793Asp missense_variant 1.0
clpC1 4038653 c.2052C>T synonymous_variant 0.4
clpC1 4038658 p.Lys683Gln missense_variant 0.4
clpC1 4038661 p.Ser682Thr missense_variant 0.4
clpC1 4038662 c.2043T>C synonymous_variant 0.4
clpC1 4038671 c.2034T>C synonymous_variant 0.4
embC 4241026 c.1164C>G synonymous_variant 1.0
embA 4242250 c.-983C>G upstream_gene_variant 1.0
embB 4247398 c.885G>T synonymous_variant 1.0
embB 4248007 c.1494C>G synonymous_variant 0.5
embB 4248011 p.Ser500Ala missense_variant 0.4
embB 4248035 p.Val508Ile missense_variant 0.33
embB 4248041 p.Ala510Thr missense_variant 0.33
embB 4248044 p.Lys511Ala missense_variant 0.33
embB 4248052 c.1539G>A synonymous_variant 0.33
embB 4248055 c.1542G>C synonymous_variant 0.33
embB 4248070 c.1557T>C synonymous_variant 0.33
embB 4248133 c.1620C>G synonymous_variant 0.29
embB 4248142 c.1629T>C synonymous_variant 0.33
embB 4248143 c.1630T>C synonymous_variant 0.33
embB 4248157 c.1644A>G synonymous_variant 0.29
embB 4248206 p.Ser565Gly missense_variant 0.33
embB 4248220 c.1707A>G synonymous_variant 0.33
embB 4248241 c.1728C>T synonymous_variant 0.4
embB 4248265 c.1752C>T synonymous_variant 0.4
embB 4248266 c.1753C>T synonymous_variant 0.4
embB 4248277 c.1764G>C synonymous_variant 0.5
embB 4249328 p.Met939Leu missense_variant 1.0
aftB 4267490 c.1347G>C synonymous_variant 1.0
ethA 4326203 p.Ser424* stop_gained 1.0