TB-Profiler result

Run: SRR13838000
Summary

Run ID: SRR13838000

Sample name:

Date: 03-04-2023 09:23:54

Number of reads: 885554

Percentage reads mapped: 96.44

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 5922 p.Glu228Gly missense_variant 1.0
gyrB 7242 p.Lys668Thr missense_variant 1.0
ccsA 620360 p.Tyr157Ser missense_variant 1.0
rpoB 761356 c.1550_1551insA frameshift_variant 1.0
rpoC 763347 c.-23C>G upstream_gene_variant 1.0
rpoC 764764 c.1395T>C synonymous_variant 0.11
rpoC 766025 p.Val886Met missense_variant 1.0
mmpL5 776145 p.Ala779Gly missense_variant 1.0
mmpL5 776954 p.Lys509Asn missense_variant 1.0
rplC 801231 c.423C>A synonymous_variant 1.0
atpE 1460916 c.-129G>A upstream_gene_variant 1.0
rrl 1476201 n.2544C>G non_coding_transcript_exon_variant 0.93
rpsA 1834366 c.825A>G synonymous_variant 0.12
rpsA 1834396 c.855G>C synonymous_variant 0.13
rpsA 1834411 c.870T>C synonymous_variant 0.14
rpsA 1834417 c.876G>C synonymous_variant 0.18
rpsA 1834423 c.882G>C synonymous_variant 0.18
rpsA 1834435 c.894G>C synonymous_variant 0.12
rpsA 1834451 c.910T>C synonymous_variant 0.12
rpsA 1834468 c.927A>G synonymous_variant 0.13
rpsA 1834489 c.948T>C synonymous_variant 0.13
katG 2155137 c.975G>C synonymous_variant 1.0
PPE35 2168892 p.Thr574Lys missense_variant 0.97
Rv1979c 2222852 p.Ala105Thr missense_variant 1.0
ribD 2987259 p.Leu141Val missense_variant 1.0
Rv2752c 3065161 p.Asn344Thr missense_variant 1.0
Rv2752c 3065830 p.Ile121Thr missense_variant 1.0
Rv2752c 3067100 c.-909G>A upstream_gene_variant 1.0
fbiD 3339117 c.-1C>T upstream_gene_variant 1.0
Rv3083 3448661 p.Val53Ala missense_variant 1.0
Rv3236c 3612041 p.Val359Glu missense_variant 1.0
fbiA 3640418 c.-125C>A upstream_gene_variant 1.0
rpoA 3877877 p.Ala211Ser missense_variant 0.97
clpC1 4039250 c.1455C>G synonymous_variant 1.0
embC 4242113 c.2251C>T synonymous_variant 1.0
embB 4246367 c.-147C>T upstream_gene_variant 1.0
whiB6 4338567 c.-46C>T upstream_gene_variant 1.0
gid 4408302 c.-101delC upstream_gene_variant 1.0