TB-Profiler result

Run: SRR13837766
Summary

Run ID: SRR13837766

Sample name:

Date: 03-04-2023 09:17:56

Number of reads: 148177

Percentage reads mapped: 97.85

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 6667 p.Gln476His missense_variant 1.0
gyrA 7289 c.-13_-12insT upstream_gene_variant 1.0
gyrA 8193 p.Gly298Arg missense_variant 0.18
gyrA 8442 c.1141C>T synonymous_variant 0.29
gyrA 8561 c.1260A>G synonymous_variant 0.33
gyrA 8619 c.1318T>C synonymous_variant 0.67
rpoB 760214 p.Asn136Lys missense_variant 1.0
rpoB 760541 c.735G>C synonymous_variant 0.2
rpoB 760547 c.741G>C synonymous_variant 0.2
rpoB 760661 c.855A>C synonymous_variant 0.29
rpoC 763660 c.291T>G synonymous_variant 0.33
rpoC 763675 c.306C>G synonymous_variant 0.33
fbiC 1303455 c.525C>G synonymous_variant 0.4
fbiC 1303464 c.534A>G synonymous_variant 0.4
fbiC 1303470 c.540T>G synonymous_variant 0.4
fbiC 1303476 c.546G>C synonymous_variant 0.4
fbiC 1303480 p.Gln184Glu missense_variant 0.4
fbiC 1303489 c.559C>T synonymous_variant 0.4
fbiC 1303497 c.567G>A synonymous_variant 0.4
fbiC 1303501 c.571C>T synonymous_variant 0.4
fbiC 1303509 c.579G>C synonymous_variant 0.4
fbiC 1303512 c.582T>C synonymous_variant 0.4
fbiC 1303521 c.591C>T synonymous_variant 0.4
fbiC 1303530 c.600G>A synonymous_variant 0.4
fbiC 1303534 p.Ser202Ala missense_variant 0.4
fbiC 1303539 c.609G>C synonymous_variant 0.4
fbiC 1303545 c.615A>G synonymous_variant 0.4
fbiC 1303575 c.645G>C synonymous_variant 0.4
fbiC 1303590 c.660A>G synonymous_variant 0.33
rrs 1471943 n.98T>C non_coding_transcript_exon_variant 1.0
rrs 1472075 n.230A>C non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>T non_coding_transcript_exon_variant 1.0
rrs 1473370 n.1525T>C non_coding_transcript_exon_variant 1.0
fabG1 1673813 p.Arg125Leu missense_variant 1.0
inhA 1674784 p.Arg195Gly missense_variant 1.0
rpsA 1833661 c.120A>G synonymous_variant 0.5
rpsA 1833667 c.126C>G synonymous_variant 0.67
ndh 2101793 p.Trp417* stop_gained 1.0
PPE35 2169624 p.Gly330Asp missense_variant 1.0
kasA 2519223 p.Thr370Ile missense_variant 1.0
ahpC 2726213 c.21C>T synonymous_variant 1.0
ribD 2987016 p.Gly60Arg missense_variant 1.0
Rv2752c 3065644 p.Thr183Ser missense_variant 1.0
alr 3841581 c.-161T>A upstream_gene_variant 1.0
clpC1 4038845 c.1860G>C synonymous_variant 0.4
clpC1 4038860 c.1845G>C synonymous_variant 0.4
clpC1 4038878 c.1827A>G synonymous_variant 0.4
clpC1 4038908 c.1797C>G synonymous_variant 0.33
clpC1 4038914 c.1791G>C synonymous_variant 0.33
clpC1 4038923 c.1780_1782delCTAinsTTG synonymous_variant 0.33
clpC1 4038953 c.1752A>G synonymous_variant 0.4
clpC1 4038956 c.1749T>C synonymous_variant 0.4
clpC1 4038965 c.1740T>C synonymous_variant 0.4
clpC1 4038989 c.1716T>C synonymous_variant 0.4
clpC1 4038997 c.1708T>C synonymous_variant 0.33
clpC1 4039004 c.1701C>G synonymous_variant 0.33
clpC1 4039022 c.1683A>G synonymous_variant 0.33
clpC1 4039064 c.1641C>T synonymous_variant 0.29
clpC1 4039097 c.1608G>C synonymous_variant 0.25
clpC1 4039103 c.1602T>C synonymous_variant 0.2
clpC1 4039106 c.1599G>C synonymous_variant 0.22
clpC1 4039112 c.1593C>G synonymous_variant 0.22
clpC1 4039121 c.1584T>C synonymous_variant 0.2
embC 4242810 p.Leu983Gln missense_variant 1.0
embB 4246553 p.Arg14Trp missense_variant 1.0
embB 4248920 p.Val803Met missense_variant 1.0
embB 4249551 p.Arg1013Leu missense_variant 1.0
ethA 4326296 p.Leu393Gln missense_variant 1.0