TB-Profiler result

Run: SRR4037681
Summary

Run ID: SRR4037681

Sample name:

Date: 04-04-2023 07:35:29

Number of reads: 664970

Percentage reads mapped: 99.72

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 8158 p.Ser286* stop_gained 0.13
gyrA 9137 c.1836C>A synonymous_variant 0.14
gyrA 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9381 p.Gly694Cys missense_variant 0.13
mshA 575583 p.Leu79Pro missense_variant 0.14
rpoB 762273 p.Ala823Thr missense_variant 0.18
rpoC 763492 c.123G>T synonymous_variant 0.12
rpoC 764455 c.1086G>T synonymous_variant 0.13
rpoC 766475 p.Glu1036* stop_gained 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 1.0
mmpR5 779452 p.Gly155Trp missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475644 n.1987G>A non_coding_transcript_exon_variant 0.17
inhA 1673363 c.-839G>A upstream_gene_variant 1.0
inhA 1674952 p.Pro251Ala missense_variant 0.22
rpsA 1833967 c.426C>A synonymous_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102069 p.Ala325Val missense_variant 0.17
ndh 2102646 p.Glu133Lys missense_variant 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.25
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288751 p.Ser164Leu missense_variant 0.12
kasA 2518203 p.Glu30Val missense_variant 0.17
eis 2714436 p.Met299Ile missense_variant 0.13
ahpC 2726338 p.Val49Gly missense_variant 0.3
Rv2752c 3066175 p.Pro6Arg missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474348 c.342C>A synonymous_variant 0.22
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiA 3640356 c.-187G>A upstream_gene_variant 0.18
clpC1 4039947 p.Gly253Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.12
embA 4244213 c.981C>A synonymous_variant 0.12
embB 4245680 c.-834G>A upstream_gene_variant 0.13
embB 4246585 c.72C>G synonymous_variant 0.18
ubiA 4269437 p.Ala133Ser missense_variant 0.13
ethA 4326584 p.Pro297Leu missense_variant 0.14
ethA 4327351 p.Met41Ile missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0