TB-Profiler result

Run: ERR11050204
Summary

Run ID: ERR11050204

Sample name:

Date: 02-04-2023 15:47:43

Number of reads: 710748

Percentage reads mapped: 99.78

Strain: lineage4

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
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
fgd1 490756 c.-27T>G upstream_gene_variant 0.18
mshA 576489 p.Val381Gly missense_variant 0.75
ccsA 619786 c.-104delT upstream_gene_variant 0.25
ccsA 620367 p.Asn159Lys missense_variant 0.11
rpoB 761479 p.Lys558Thr missense_variant 0.22
rpoB 763151 p.Phe1115Leu missense_variant 0.18
rpoC 763238 c.-132T>C upstream_gene_variant 0.11
rpoC 764365 c.996C>T synonymous_variant 0.25
rpoC 764367 p.Gly333Ala missense_variant 0.31
rpoC 764537 p.Pro390Ala missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775772 p.Met903Ile missense_variant 0.13
mmpL5 777883 p.Gly200Arg missense_variant 0.44
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801201 c.393C>T synonymous_variant 0.15
fbiC 1304292 c.1362C>T synonymous_variant 0.13
Rv1258c 1407006 p.Leu112Arg missense_variant 0.23
embR 1416994 p.Glu118Asp missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472161 n.316T>C non_coding_transcript_exon_variant 0.15
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.96
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.24
fabG1 1673553 p.Asp38Glu missense_variant 0.38
inhA 1673568 c.-634C>G upstream_gene_variant 0.29
inhA 1673796 c.-406G>A upstream_gene_variant 0.11
inhA 1674830 p.Glu210Val missense_variant 0.18
rpsA 1834795 c.1254C>T synonymous_variant 0.13
rpsA 1834959 p.Leu473Gln missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918116 p.Glu59Asp missense_variant 0.2
katG 2155986 c.126G>A synonymous_variant 0.25
katG 2156504 c.-393A>G upstream_gene_variant 0.14
katG 2156556 c.-445A>C upstream_gene_variant 0.2
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168307 p.Phe769Ser missense_variant 0.17
PPE35 2169072 p.Pro514Arg missense_variant 0.12
PPE35 2170037 c.576C>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.67
folC 2746528 c.1071C>G synonymous_variant 0.23
folC 2746854 p.Ser249Ala missense_variant 0.29
pepQ 2859778 p.Val214Gly missense_variant 0.14
pepQ 2860159 p.Ala87Gly missense_variant 0.5
pepQ 2860596 c.-178C>G upstream_gene_variant 0.2
ribD 2987049 p.Phe71Val missense_variant 0.14
ribD 2987287 p.Asp150Val missense_variant 0.22
ribD 2987498 c.660C>G synonymous_variant 0.25
Rv2752c 3064570 p.Val541Gly missense_variant 0.33
Rv2752c 3067162 c.-971T>G upstream_gene_variant 0.5
thyX 3067958 c.-13T>G upstream_gene_variant 0.18
thyA 3074629 c.-158C>A upstream_gene_variant 0.16
ald 3086987 p.Gln56His missense_variant 1.0
ald 3087007 p.Gln63Leu missense_variant 0.43
ald 3087012 p.Trp65Gly missense_variant 0.58
fbiD 3339133 p.Asp6His missense_variant 0.2
fbiD 3339751 p.Ala212Pro missense_variant 1.0
fprA 3473877 c.-130G>A upstream_gene_variant 0.18
fprA 3474119 p.Met38Thr missense_variant 1.0
fprA 3474813 p.Phe269Leu missense_variant 0.22
whiB7 3568871 c.-192C>T upstream_gene_variant 0.15
fbiA 3640520 c.-23G>A upstream_gene_variant 0.13
ddn 3987193 p.Glu117Val missense_variant 0.13
clpC1 4038951 p.Phe585Ser missense_variant 0.15
clpC1 4040550 p.Leu52Trp missense_variant 0.21
embC 4240628 p.Gly256Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243709 c.477C>G synonymous_variant 0.18
embB 4247033 p.Ser174Arg missense_variant 0.5
embB 4247273 c.760A>C synonymous_variant 0.5
embB 4248143 p.Leu544Met missense_variant 0.18
embB 4248328 c.1815G>C synonymous_variant 0.3
embB 4249085 p.Leu858Phe missense_variant 0.15
aftB 4267400 c.1437G>C synonymous_variant 0.42
aftB 4267631 c.1206C>T synonymous_variant 1.0
aftB 4267693 c.1143delG frameshift_variant 0.14
aftB 4267981 p.Arg286Gly missense_variant 0.14
ethA 4326386 p.Ile363Asn missense_variant 0.2
whiB6 4338200 p.Asp108His missense_variant 0.3
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408188 c.15G>A synonymous_variant 0.17
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0