TB-Profiler result

Run: ERR4829817
Summary

Run ID: ERR4829817

Sample name:

Date: 01-04-2023 19:42:30

Number of reads: 3798211

Percentage reads mapped: 91.01

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576113 p.Arg256Gly missense_variant 0.36
rpoC 764995 c.1626C>G synonymous_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 1472150 n.305T>A non_coding_transcript_exon_variant 0.1
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.1
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.11
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.12
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.14
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.14
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.14
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.25
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.25
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.25
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.43
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.43
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.36
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.27
rrl 1474935 n.1278A>G non_coding_transcript_exon_variant 0.15
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.15
rrl 1475616 n.1959A>G non_coding_transcript_exon_variant 0.11
rrl 1475759 n.2102C>G non_coding_transcript_exon_variant 0.11
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.11
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.14
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.21
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.18
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.18
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.2
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.2
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.18
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.19
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.19
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.19
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.16
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.16
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.16
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.12
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.11
inhA 1673450 c.-752C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170062 p.Ala184Gly missense_variant 0.13
PPE35 2170065 p.Ala183Gly missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.2
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.64
fbiD 3339746 p.Ala210Gly missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.2
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.17
embB 4248324 p.Ala604Gly missense_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0