TB-Profiler result

Run: ERR9892286
Summary

Run ID: ERR9892286

Sample name:

Date: 02-04-2023 13:27:42

Number of reads: 1215905

Percentage reads mapped: 99.04

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 0.97
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.99
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 576720 p.Glu458Ala missense_variant 0.29
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.23
mmpL5 777122 c.1359C>T synonymous_variant 0.24
mmpL5 777128 c.1353A>G synonymous_variant 0.24
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.16
PPE35 2167965 p.Ala883Gly missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.23
PPE35 2170053 p.Thr187Ser missense_variant 0.23
PPE35 2170372 p.Thr81Ala missense_variant 0.14
PPE35 2170392 p.Gly74Ala missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518809 p.Lys232Arg missense_variant 0.16
folC 2746230 p.Ala457Ser missense_variant 0.11
ribD 2986869 p.Asp11Asn missense_variant 1.0
thyA 3074561 c.-90T>C upstream_gene_variant 0.12
thyA 3074564 c.-93G>A upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448824 c.321C>A synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641968 p.Ala145Val missense_variant 0.18
rpoA 3878636 c.-129C>A upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242648 p.Leu929Arg missense_variant 0.12
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244885 c.1653A>G synonymous_variant 0.13
embB 4245716 c.-798G>T upstream_gene_variant 0.12
embB 4247512 c.999T>C synonymous_variant 0.14
embB 4247516 p.Asn335Asp missense_variant 0.14
embB 4247699 p.Met396Leu missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0