TB-Profiler result

Run: SRR13837613
Summary

Run ID: SRR13837613

Sample name:

Date: 03-04-2023 09:14:25

Number of reads: 297990

Percentage reads mapped: 96.35

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 5149 c.-91G>C upstream_gene_variant 1.0
gyrB 6256 c.1017G>A synonymous_variant 0.25
gyrA 6307 c.-995T>G upstream_gene_variant 0.22
gyrB 7090 p.Asp617Glu missense_variant 1.0
gyrA 8436 p.Tyr379Asn missense_variant 1.0
fgd1 491701 p.His307Asn missense_variant 1.0
ccsA 619765 c.-126G>A upstream_gene_variant 1.0
rpoB 760225 p.Glu140Ala missense_variant 0.18
rpoB 761408 c.1602G>C synonymous_variant 0.18
rpoB 761414 c.1608A>G synonymous_variant 0.17
rpoB 761423 c.1617T>C synonymous_variant 0.14
rpoB 761435 c.1629T>C synonymous_variant 0.17
rpoB 761477 c.1671C>G synonymous_variant 0.14
rpoB 761510 c.1704T>C synonymous_variant 0.14
rpoB 761531 c.1725C>G synonymous_variant 0.14
rpoB 761537 c.1731C>G synonymous_variant 0.14
rpoB 761948 c.2142G>C synonymous_variant 0.17
rpoC 762989 c.-381G>C upstream_gene_variant 0.17
rpoC 762995 c.-375G>T upstream_gene_variant 0.18
rpoC 763013 c.-357C>G upstream_gene_variant 0.12
rpoC 763028 c.-342T>C upstream_gene_variant 0.12
rpoC 763031 c.-339T>G upstream_gene_variant 0.12
rpoC 763034 c.-336C>G upstream_gene_variant 0.12
rpoC 763040 c.-330C>G upstream_gene_variant 0.12
rpoC 763067 c.-303C>G upstream_gene_variant 0.12
rpoC 763070 c.-300T>C upstream_gene_variant 0.11
rpoC 763085 c.-285C>G upstream_gene_variant 0.12
rpoC 763486 c.117T>G synonymous_variant 0.12
rpoC 763492 c.123G>C synonymous_variant 0.12
rpoC 763546 c.177A>G synonymous_variant 0.15
rpoC 763570 c.201G>C synonymous_variant 0.14
rpoC 763573 c.204G>C synonymous_variant 0.13
rpoC 763594 c.225C>T synonymous_variant 0.12
rpoC 763636 c.267T>C synonymous_variant 0.12
rpoC 763675 c.306C>G synonymous_variant 0.16
rpoC 763696 c.327T>C synonymous_variant 0.17
rpoC 763702 c.333C>G synonymous_variant 0.18
rpoC 763717 c.348T>C synonymous_variant 0.17
rpoC 763723 c.354G>C synonymous_variant 0.17
rpoC 763732 c.363C>G synonymous_variant 0.15
rpoC 763741 c.372C>T synonymous_variant 0.17
rpoC 763744 c.375G>C synonymous_variant 0.12
rpoC 763765 c.396T>C synonymous_variant 0.12
rpoC 763807 c.438T>C synonymous_variant 0.14
rpoC 763816 c.447C>G synonymous_variant 0.11
mmpL5 775867 p.Arg872Gly missense_variant 1.0
mmpL5 776710 p.Cys591Ser missense_variant 1.0
mmpL5 777625 p.Gln286Lys missense_variant 1.0
mmpS5 778811 p.Phe32Ser missense_variant 1.0
rplC 800612 c.-197A>G upstream_gene_variant 0.15
rplC 800618 c.-191T>C upstream_gene_variant 0.18
rplC 800627 c.-182C>T upstream_gene_variant 0.18
rplC 800648 c.-161A>T upstream_gene_variant 0.22
rplC 800654 c.-155T>C upstream_gene_variant 0.2
rplC 800693 c.-116A>G upstream_gene_variant 0.13
rplC 800703 c.-106T>C upstream_gene_variant 0.13
rplC 800715 c.-94A>C upstream_gene_variant 0.15
rplC 800720 c.-89T>C upstream_gene_variant 0.14
rplC 800723 c.-86C>G upstream_gene_variant 0.14
fbiC 1304565 c.1635C>G synonymous_variant 0.2
embR 1416901 c.447G>C synonymous_variant 1.0
rrl 1474466 n.810delA non_coding_transcript_exon_variant 1.0
rrl 1474960 n.1303C>G non_coding_transcript_exon_variant 0.17
rrl 1475224 n.1567T>C non_coding_transcript_exon_variant 1.0
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.22
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.25
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.18
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.15
rrl 1475402 n.1745C>T non_coding_transcript_exon_variant 0.25
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.25
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.23
rrl 1475436 n.1779C>T non_coding_transcript_exon_variant 0.23
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.25
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.33
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.33
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.29
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.29
rrl 1476589 n.2932G>A non_coding_transcript_exon_variant 0.93
PPE35 2170487 c.126T>A synonymous_variant 1.0
Rv1979c 2221853 p.Phe438Ile missense_variant 1.0
ribD 2987369 c.531G>A synonymous_variant 1.0
thyA 3073975 p.Arg166Pro missense_variant 0.89
Rv3236c 3612013 c.1104A>T synonymous_variant 1.0
Rv3236c 3612032 p.Met362Arg missense_variant 1.0
ddn 3987159 p.Val106Leu missense_variant 0.25
clpC1 4038596 c.2109A>G synonymous_variant 0.5
embC 4240425 p.Arg188Pro missense_variant 1.0
embC 4240477 c.615C>A synonymous_variant 1.0
embC 4242863 p.Tyr1001Asn missense_variant 0.2
embA 4244214 p.Ala328Ser missense_variant 1.0
embA 4244849 c.1617C>G synonymous_variant 1.0
embB 4247198 p.Thr229Pro missense_variant 1.0
embB 4247381 p.Trp290Arg missense_variant 1.0
aftB 4268115 p.Leu241Arg missense_variant 1.0
aftB 4268696 c.141G>A synonymous_variant 1.0
ethA 4326298 c.1176G>A synonymous_variant 1.0
whiB6 4338567 c.-46C>A upstream_gene_variant 1.0