TB-Profiler result

Run: SRR2101488
Summary

Run ID: SRR2101488

Sample name:

Date: 03-04-2023 23:44:54

Number of reads: 565590

Percentage reads mapped: 99.13

Strain: lineage4.4.2

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
lineage4.4 Euro-American S;T None 0.98
lineage4.4.2 Euro-American T1;T2 None 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
rpoC 766691 p.Gly1108Cys missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777642 p.Phe280Ser missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781526 c.-34G>T upstream_gene_variant 0.12
Rv1258c 1407336 p.Arg2Ile missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918114 p.Glu59* stop_gained 0.12
PPE35 2167674 p.Leu980Pro missense_variant 0.2
PPE35 2168605 p.Pro670Thr missense_variant 0.15
PPE35 2168757 p.Gln619Arg missense_variant 1.0
PPE35 2168780 p.His611Gln missense_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.22
PPE35 2170053 p.Thr187Ser missense_variant 0.18
PPE35 2170694 c.-82T>C upstream_gene_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518480 c.366T>C synonymous_variant 0.11
eis 2715033 p.Met100Ile missense_variant 0.13
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448348 c.-156G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642776 c.1242G>A synonymous_variant 0.15
alr 3840212 c.1209C>T synonymous_variant 1.0
clpC1 4038162 p.Arg848Leu missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245580 p.Ser783Tyr missense_variant 0.12
embB 4246031 c.-483G>A upstream_gene_variant 0.17
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4247249 p.Gly246Arg missense_variant 1.0
embB 4249323 p.Ala937Glu missense_variant 0.2
aftB 4268111 c.726C>A synonymous_variant 0.15
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0