TB-Profiler result

Run: SRR13837584
Summary

Run ID: SRR13837584

Sample name:

Date: 03-04-2023 09:13:46

Number of reads: 594366

Percentage reads mapped: 97.1

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 5192 c.-48C>G upstream_gene_variant 1.0
gyrA 9230 c.1929T>C synonymous_variant 0.18
gyrA 9658 c.2357_2358insT frameshift_variant 1.0
fgd1 490779 c.-4A>T upstream_gene_variant 1.0
rpoB 760041 p.Gly79Arg missense_variant 1.0
rpoB 760652 c.846C>A synonymous_variant 1.0
rpoB 761122 p.Pro439Arg missense_variant 0.94
rpoB 761207 c.1401C>T synonymous_variant 0.11
rpoB 761213 c.1407G>C synonymous_variant 0.11
rpoB 761219 c.1413G>C synonymous_variant 0.11
rpoC 762863 c.-507T>C upstream_gene_variant 0.11
rpoC 762929 c.-441G>C upstream_gene_variant 0.12
mmpL5 775929 p.Asn851Ile missense_variant 1.0
mmpS5 778941 c.-36A>G upstream_gene_variant 1.0
embR 1417376 c.-29T>C upstream_gene_variant 1.0
rrl 1473740 n.83G>A non_coding_transcript_exon_variant 0.96
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.14
rrl 1473945 n.288T>A non_coding_transcript_exon_variant 0.14
rrl 1473946 n.289A>T non_coding_transcript_exon_variant 0.14
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.15
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.15
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.14
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.11
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.12
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.12
rrl 1474574 n.917A>T non_coding_transcript_exon_variant 0.92
rpsA 1834210 c.669C>T synonymous_variant 0.14
rpsA 1834222 c.681T>C synonymous_variant 0.11
rpsA 1834610 p.Arg357Gly missense_variant 1.0
ndh 2101828 c.1215C>T synonymous_variant 1.0
PPE35 2168706 p.Ser636Phe missense_variant 1.0
pncA 2289887 c.-646A>C upstream_gene_variant 1.0
folC 2746838 p.Ala254Glu missense_variant 1.0
ribD 2987500 p.Gly221Asp missense_variant 1.0
thyX 3068082 c.-137T>C upstream_gene_variant 1.0
fbiD 3338954 c.-164A>G upstream_gene_variant 1.0
fbiD 3339235 p.Leu40Val missense_variant 1.0
fbiD 3339406 p.Thr97Ala missense_variant 1.0
Rv3083 3448625 p.Leu41Gln missense_variant 1.0
fbiB 3642247 p.Asn238Thr missense_variant 1.0
fbiB 3642283 p.Glu250Ala missense_variant 1.0
rpoA 3877613 p.Ile299Val missense_variant 0.11
clpC1 4039483 c.1221_1222insC frameshift_variant 1.0
clpC1 4039751 c.954A>G synonymous_variant 0.14
clpC1 4039757 c.948A>G synonymous_variant 0.14
clpC1 4039760 c.945T>C synonymous_variant 0.13
clpC1 4039766 c.939T>C synonymous_variant 0.13
clpC1 4039769 c.936C>G synonymous_variant 0.13
clpC1 4039850 c.855T>C synonymous_variant 0.15
clpC1 4039865 c.840T>C synonymous_variant 0.18
embA 4243843 c.613dupG frameshift_variant 1.0
embA 4244833 p.Val534Ala missense_variant 1.0
embA 4245735 p.Ala835Ser missense_variant 1.0
aftB 4267994 p.Met281Ile missense_variant 1.0