TB-Profiler result

Run: ERR4821112
Summary

Run ID: ERR4821112

Sample name:

Date: 01-04-2023 17:04:03

Number of reads: 214010

Percentage reads mapped: 99.42

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 5075 c.-165_-164insG upstream_gene_variant 1.0
gyrA 7126 c.-176G>A upstream_gene_variant 0.4
gyrB 7248 p.Val670Gly missense_variant 0.5
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576114 p.Arg256Pro missense_variant 0.29
mshA 576478 c.1131G>T synonymous_variant 0.33
mshA 576751 p.Lys468Asn missense_variant 0.5
ccsA 620306 p.Val139Asp missense_variant 0.33
rpoB 759620 c.-187A>C upstream_gene_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764543 p.Thr392Ala missense_variant 0.4
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765558 p.Thr730Met missense_variant 0.29
rpoC 765688 c.2319G>A synonymous_variant 0.33
rpoC 766139 p.Thr924Ser missense_variant 0.29
rpoC 767228 p.Ser1287Thr missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775741 c.2740C>T synonymous_variant 0.25
mmpL5 775747 p.Met912Leu missense_variant 0.17
mmpL5 775748 c.2733T>C synonymous_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304952 c.2022C>T synonymous_variant 0.2
Rv1258c 1406578 p.Gln255Lys missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472945 n.1100C>T non_coding_transcript_exon_variant 1.0
rrl 1476568 n.2911G>A non_coding_transcript_exon_variant 0.67
inhA 1674326 p.Asp42Val missense_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103200 c.-158C>T upstream_gene_variant 0.4
katG 2155287 c.825C>T synonymous_variant 0.4
PPE35 2167865 c.2748G>C synonymous_variant 0.22
PPE35 2167868 c.2745A>C synonymous_variant 0.22
PPE35 2170147 p.Ser156Ala missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746783 c.816C>T synonymous_variant 0.67
Rv2752c 3066315 c.-124C>T upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449711 p.Gly403Ala missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568419 c.261C>G synonymous_variant 1.0
whiB7 3568562 p.Lys40* stop_gained 0.33
clpC1 4040820 c.-117delC upstream_gene_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245640 p.Asn803Thr missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407606 c.597C>T synonymous_variant 0.4