TB-Profiler result

Run: SRR16370699
Summary

Run ID: SRR16370699

Sample name:

Date: 03-04-2023 17:39:59

Number of reads: 1148818

Percentage reads mapped: 99.47

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 9304 p.Gly668Asp missense_variant 1.0
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472131 n.286T>C non_coding_transcript_exon_variant 0.22
rrs 1472309 n.464C>A non_coding_transcript_exon_variant 0.13
rrs 1473108 n.1263G>T non_coding_transcript_exon_variant 0.1
rrs 1473141 n.1296G>T non_coding_transcript_exon_variant 0.11
rrl 1473553 n.-105G>T upstream_gene_variant 0.12
rrl 1474489 n.832T>G non_coding_transcript_exon_variant 0.4
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.2
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.2
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.2
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.2
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
alr 3840864 p.Asp186Gly missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878578 c.-71C>A upstream_gene_variant 0.5
embC 4240390 p.Asn176Lys 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 4244858 c.1626G>A synonymous_variant 0.14
embA 4244927 p.Phe565Leu missense_variant 0.12
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4327161 p.Ile105Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407551 p.Met218Val missense_variant 1.0