TB-Profiler result

Run: SRR6896315

Summary

Run ID: SRR6896315

Sample name:

Date: 04-04-2023 18:02:13

Number of reads: 725962

Percentage reads mapped: 99.57

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 Euro-American T;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
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 576424 c.1077T>G synonymous_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764811 p.Pro481His missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776798 c.1683G>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781437 c.-123G>A upstream_gene_variant 0.11
fbiC 1305114 c.2184T>C synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833388 c.-153_-151delGTG upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102733 p.Leu104Val missense_variant 0.11
katG 2154878 p.Trp412Arg missense_variant 0.13
katG 2155136 p.Thr326Ala missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726727 p.Arg179Cys missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339431 p.Glu105Gly missense_variant 0.11
Rv3083 3448447 c.-57T>C upstream_gene_variant 0.11
Rv3083 3449072 p.Val190Ala missense_variant 0.11
Rv3083 3449291 p.Lys263Met missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568582 p.Pro33Leu missense_variant 0.12
fbiB 3642875 c.1341G>A synonymous_variant 0.2
rpoA 3878169 c.339G>C synonymous_variant 0.12
panD 4044158 p.Glu42Lys missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245151 p.Val640Ala missense_variant 0.11
embA 4245182 c.1950T>C synonymous_variant 0.1
embB 4248610 c.2097C>A synonymous_variant 0.12
embB 4248678 p.Met722Lys missense_variant 0.11
aftB 4267440 p.Ile466Thr missense_variant 0.17
aftB 4268043 p.Ala265Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0