TB-Profiler result

Run: SRR6856039
Summary

Run ID: SRR6856039

Sample name:

Date: 04-04-2023 17:53:58

Number of reads: 440106

Percentage reads mapped: 99.02

Strain: lineage4.1.1

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 8287 p.Asn329Ser missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575366 p.Asp7Asn missense_variant 0.22
rpoB 761570 c.1764T>C synonymous_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406657 c.684C>A synonymous_variant 0.12
Rv1258c 1406806 p.Thr179Ala missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474017 n.360A>G non_coding_transcript_exon_variant 0.12
rrl 1474034 n.377G>A non_coding_transcript_exon_variant 0.11
rrl 1474958 n.1301A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.91
ndh 2102510 p.Ala178Asp missense_variant 0.17
ndh 2102524 c.519C>T synonymous_variant 0.12
katG 2155308 c.804C>A synonymous_variant 0.15
PPE35 2167761 p.Ser951Leu missense_variant 0.14
PPE35 2170632 c.-20A>G upstream_gene_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289128 c.114G>A synonymous_variant 0.12
pepQ 2860069 p.Lys117Arg missense_variant 0.22
pepQ 2860570 c.-152A>G upstream_gene_variant 0.18
Rv2752c 3066103 p.Asn30Ser missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338955 c.-163T>G upstream_gene_variant 0.11
Rv3083 3448677 c.174C>T synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474718 p.Ala238Thr missense_variant 0.1
fbiB 3641394 c.-141A>C upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642464 c.930A>G synonymous_variant 0.15
rpoA 3877553 p.Glu319Lys missense_variant 1.0
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243451 c.219G>A synonymous_variant 0.11
embA 4244510 c.1279_1281delATC conservative_inframe_deletion 0.22
embA 4244872 p.Gly547Ala missense_variant 0.22
embB 4246857 p.Phe115Ser missense_variant 0.11
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4269625 p.Tyr70Cys missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0