TB-Profiler result

Run: ERR4822051
Summary

Run ID: ERR4822051

Sample name:

Date: 01-04-2023 17:36:27

Number of reads: 692325

Percentage reads mapped: 99.51

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
gyrB 6443 p.Asp402Asn missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8958 p.Asp553Tyr missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775813 p.Phe890Leu 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 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67
rrl 1473406 n.-252A>G upstream_gene_variant 0.12
rrl 1473416 n.-242G>A upstream_gene_variant 0.13
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.25
rrl 1474752 n.1096delA non_coding_transcript_exon_variant 0.25
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.33
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.33
rrl 1474783 n.1126G>T non_coding_transcript_exon_variant 0.33
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.33
rrl 1474794 n.1137C>G non_coding_transcript_exon_variant 0.33
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.29
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.29
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.29
rrl 1474852 n.1195T>C non_coding_transcript_exon_variant 0.29
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.4
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.14
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.13
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.13
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918000 p.Gln21Glu missense_variant 1.0
ndh 2102348 p.Ala232Glu missense_variant 0.29
ndh 2103225 c.-183A>C upstream_gene_variant 0.25
katG 2154225 c.1887T>A synonymous_variant 0.11
katG 2155193 p.Gly307* stop_gained 0.1
PPE35 2169895 p.Gly240Cys missense_variant 0.15
PPE35 2170066 p.Ala183Thr missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289443 c.-202C>T upstream_gene_variant 0.2
pncA 2290066 c.-825G>T upstream_gene_variant 0.22
kasA 2518151 p.Ser13Arg missense_variant 0.25
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065471 c.720delC frameshift_variant 0.12
Rv2752c 3067135 c.-944C>T upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087074 c.255G>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878177 p.Val111Leu missense_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.14
embB 4246555 c.42G>C synonymous_variant 0.13
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.14
ubiA 4270030 c.-197C>G upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408471 c.-269G>A upstream_gene_variant 0.11