TB-Profiler result

Run: SRR13837599
Summary

Run ID: SRR13837599

Sample name:

Date: 03-04-2023 09:14:07

Number of reads: 592534

Percentage reads mapped: 97.81

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 0.99
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 5333 p.Met32Val missense_variant 1.0
ccsA 620509 p.Thr207Ser missense_variant 1.0
ccsA 620749 p.Trp287Arg missense_variant 1.0
rpoB 761778 p.Asn658Asp missense_variant 0.11
rpoC 766954 c.3586delG frameshift_variant 1.0
mmpL5 776080 p.Ala801Pro missense_variant 1.0
mmpS5 779649 c.-744T>A upstream_gene_variant 1.0
rplC 801220 p.Ser138Gly missense_variant 1.0
fbiC 1303494 p.Leu188Phe missense_variant 1.0
fbiC 1304711 p.Ala594Asp missense_variant 0.12
fbiC 1304724 c.1794A>G synonymous_variant 0.11
fbiC 1304727 c.1797A>G synonymous_variant 0.17
fbiC 1304742 c.1812T>C synonymous_variant 0.17
fbiC 1304748 c.1818T>C synonymous_variant 0.12
fbiC 1304757 c.1827A>G synonymous_variant 0.13
fbiC 1304778 c.1848T>C synonymous_variant 0.13
fbiC 1304784 c.1854T>C synonymous_variant 0.12
fbiC 1304787 c.1857T>G synonymous_variant 0.12
fbiC 1304800 c.1870C>A synonymous_variant 0.13
fbiC 1304808 c.1878C>G synonymous_variant 0.17
fbiC 1304811 c.1881C>G synonymous_variant 0.15
fbiC 1304817 c.1887T>C synonymous_variant 0.14
fbiC 1304829 c.1899T>C synonymous_variant 0.14
fbiC 1304853 c.1923C>T synonymous_variant 0.13
fbiC 1304856 c.1926C>G synonymous_variant 0.13
rrl 1476502 n.2845G>C non_coding_transcript_exon_variant 0.94
fabG1 1673622 p.Asp61Glu missense_variant 1.0
fabG1 1673718 c.279_280insT frameshift_variant&stop_gained 1.0
rpsA 1834123 c.582C>G synonymous_variant 0.12
rpsA 1834249 c.708T>C synonymous_variant 0.12
rpsA 1834261 c.720A>G synonymous_variant 0.12
rpsA 1834303 c.762T>C synonymous_variant 0.12
rpsA 1834306 c.765T>C synonymous_variant 0.12
rpsA 1834348 c.807T>C synonymous_variant 0.12
rpsA 1834366 c.825A>G synonymous_variant 0.12
rpsA 1834375 c.834G>A synonymous_variant 0.13
rpsA 1834378 c.837T>C synonymous_variant 0.12
tlyA 1918080 c.141C>A synonymous_variant 0.13
katG 2155998 p.Trp38Cys missense_variant 1.0
katG 2156285 c.-174T>G upstream_gene_variant 1.0
ahpC 2726085 c.-108G>A upstream_gene_variant 1.0
ribD 2987458 p.Val207Ala missense_variant 1.0
Rv3236c 3612721 c.395delT frameshift_variant 1.0
alr 3840445 p.Leu326Met missense_variant 1.0
alr 3841156 p.Leu89Val missense_variant 1.0
rpoA 3877966 p.Thr181Asn missense_variant 1.0
clpC1 4038773 c.1932T>C synonymous_variant 0.15
clpC1 4038782 c.1923G>C synonymous_variant 0.14
clpC1 4038812 c.1893T>C synonymous_variant 0.14
clpC1 4038845 c.1860G>C synonymous_variant 0.22
clpC1 4038860 c.1845G>C synonymous_variant 0.18
clpC1 4038878 c.1827A>G synonymous_variant 0.17
clpC1 4038908 c.1797C>G synonymous_variant 0.17
clpC1 4038914 c.1791G>C synonymous_variant 0.17
clpC1 4038923 c.1782A>G synonymous_variant 0.13
clpC1 4038953 c.1752A>G synonymous_variant 0.12
clpC1 4038956 c.1749T>C synonymous_variant 0.13
clpC1 4038989 c.1716T>C synonymous_variant 0.15
clpC1 4038997 c.1708T>C synonymous_variant 0.11
clpC1 4039004 c.1701C>G synonymous_variant 0.12
panD 4044216 c.65_66insT frameshift_variant 1.0
embB 4247289 p.Ala259Gly missense_variant 1.0
embB 4248304 c.1791G>C synonymous_variant 0.13
embB 4248316 c.1803C>G synonymous_variant 0.12
embB 4248319 c.1806A>G synonymous_variant 0.12
embB 4248350 c.1837T>C synonymous_variant 0.11
embB 4248355 c.1842A>G synonymous_variant 0.11
embB 4248358 c.1845C>G synonymous_variant 0.11
embB 4248361 c.1848A>C synonymous_variant 0.11
embB 4248362 p.Ser617Ala missense_variant 0.11
embB 4248386 c.1873C>A synonymous_variant 0.11
embB 4249154 p.Gly881Arg missense_variant 1.0
ubiA 4270024 c.-191T>G upstream_gene_variant 1.0