TB-Profiler result

Run: ERR4815645
Summary

Run ID: ERR4815645

Sample name:

Date: 01-04-2023 13:58:53

Number of reads: 580623

Percentage reads mapped: 99.47

Strain: lineage4.1

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
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
fgd1 490791 c.9A>G synonymous_variant 0.14
fgd1 490806 c.27delA frameshift_variant 0.17
mshA 575698 c.351C>T synonymous_variant 1.0
ccsA 620594 p.Phe235Tyr missense_variant 0.5
rpoB 761338 p.Arg511His missense_variant 0.18
rpoC 763959 p.Val197Ala missense_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765919 c.2550C>T synonymous_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776501 c.1980A>G synonymous_variant 0.29
mmpL5 777310 p.Gly391Ser missense_variant 1.0
mmpL5 779283 c.-803G>A upstream_gene_variant 0.22
mmpL5 779298 c.-818G>C upstream_gene_variant 0.2
mmpS5 779500 c.-595G>A upstream_gene_variant 0.13
mmpS5 779560 c.-655C>T upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406158 c.1181_1182delCG frameshift_variant 0.13
Rv1258c 1406566 p.Gln259* stop_gained 0.18
embR 1416722 p.Thr209Ile missense_variant 0.12
atpE 1461168 p.Gln42* stop_gained 0.2
rrs 1471650 n.-196T>C upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473766 n.109G>A non_coding_transcript_exon_variant 0.33
rpsA 1834652 p.Glu371Lys missense_variant 0.13
rpsA 1834720 c.1179C>G synonymous_variant 0.18
rpsA 1834888 c.1347G>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101780 p.Phe421Leu missense_variant 0.11
ndh 2102909 p.Arg45His missense_variant 0.22
ndh 2103075 c.-33T>C upstream_gene_variant 0.15
PPE35 2168822 c.1791G>C synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519210 p.Val366Ile missense_variant 0.11
eis 2714868 c.465C>G synonymous_variant 0.13
eis 2715300 c.33C>T synonymous_variant 0.13
folC 2746591 c.1008C>T synonymous_variant 0.29
thyA 3074302 p.Tyr57Cys missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339576 c.459G>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474774 c.768G>C synonymous_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 1.0
whiB7 3568510 p.Leu57Pro missense_variant 0.14
alr 3841505 c.-85C>T upstream_gene_variant 1.0
rpoA 3878247 c.261G>A synonymous_variant 0.13
clpC1 4038859 p.Arg616Cys missense_variant 0.14
clpC1 4039964 c.741C>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4267540 p.Pro433Ser missense_variant 0.18
ethA 4326117 p.Thr453Ser missense_variant 1.0
ethA 4327263 p.Gly71Arg missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0