TB-Profiler result

Run: SRR6855872
Summary

Run ID: SRR6855872

Sample name:

Date: 04-04-2023 17:48:25

Number of reads: 259954

Percentage reads mapped: 99.56

Strain: lineage4.3.2.1

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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrB 5834 p.Phe199Ile missense_variant 0.2
gyrB 6052 c.813T>A synonymous_variant 0.18
gyrB 6846 c.1608_1609dupCG frameshift_variant 0.13
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8129 p.Tyr276* stop_gained 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760092 p.Ser96Thr missense_variant 0.2
rpoC 764538 p.Pro390Leu missense_variant 0.25
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765144 c.1779delC frameshift_variant 0.25
rpoC 765630 p.Asp754Gly missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777112 p.Arg457Ser missense_variant 0.25
mmpL5 777885 p.Ala199Val missense_variant 0.12
mmpR5 779247 c.262delG frameshift_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303151 p.Gly74Ala missense_variant 0.22
fbiC 1303375 p.Asp149Asn missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471953 n.109delT non_coding_transcript_exon_variant 0.11
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1473784 n.130delC non_coding_transcript_exon_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.17
fabG1 1673359 c.-81T>C upstream_gene_variant 0.17
fabG1 1673361 c.-79C>G upstream_gene_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169636 p.Ser326Asn missense_variant 0.22
PPE35 2170516 p.Gly33Arg missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
folC 2747030 c.567_568dupAC frameshift_variant 0.17
folC 2747514 p.Gln29Lys missense_variant 0.18
Rv2752c 3065071 p.Gly374Val missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448880 p.Gly126Asp missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474112 p.Val36Ile missense_variant 0.18
fprA 3474877 p.Arg291Cys missense_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040002 p.His235Asp missense_variant 0.13
embC 4239819 c.-44G>A upstream_gene_variant 0.11
embC 4241579 p.Ile573Val missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246831 c.318C>T synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0