TB-Profiler result

Run: ERR4812542
Summary

Run ID: ERR4812542

Sample name:

Date: 01-04-2023 12:08:42

Number of reads: 277297

Percentage reads mapped: 99.51

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
lineage4.1.2 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
gyrB 6980 p.Ala581Thr missense_variant 0.4
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 576093 p.Pro249Gln missense_variant 0.29
mshA 576640 p.Glu431Asp missense_variant 0.22
ccsA 619784 c.-107G>T upstream_gene_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761516 c.1710G>A synonymous_variant 0.17
rpoB 763121 p.Asn1105Lys missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779352 c.-872C>A upstream_gene_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801213 p.Gln135His missense_variant 0.14
fbiC 1302998 p.Ala23Asp missense_variant 0.14
fbiC 1303129 p.Asp67Tyr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674293 p.Glu31Val missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103233 c.-191G>T upstream_gene_variant 0.15
PPE35 2168135 c.2478C>A synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714208 p.Leu375Phe missense_variant 0.29
eis 2715414 c.-82C>T upstream_gene_variant 0.18
thyX 3067547 c.399C>A synonymous_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449028 p.Tyr175* stop_gained 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475149 c.1143C>A synonymous_variant 0.17
ddn 3987116 c.273C>T synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243897 p.Ala222Asp missense_variant 0.18
embA 4244300 c.1068C>A synonymous_variant 0.15
embB 4246958 p.Glu149* stop_gained 0.2
embB 4247055 p.Leu181Gln missense_variant 0.27
whiB6 4338595 c.-75delG upstream_gene_variant 1.0