TB-Profiler result

Run: SRR6785176
Summary

Run ID: SRR6785176

Sample name:

Date: 04-04-2023 15:34:39

Number of reads: 2314013

Percentage reads mapped: 99.66

Strain: lineage4.1.2.1

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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 5089 c.-150delG upstream_gene_variant 0.12
gyrB 5113 c.-127G>C upstream_gene_variant 0.12
gyrB 5880 p.Thr214Ile missense_variant 0.11
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 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.19
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 763189 p.Asn1128Thr missense_variant 0.18
rpoB 763197 p.Val1131Leu missense_variant 0.22
rpoB 763225 p.Glu1140Gly missense_variant 0.18
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406775 p.Ala189Val missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474234 n.577G>T non_coding_transcript_exon_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.13
fabG1 1674164 p.Gly242Val missense_variant 0.22
rpsA 1834889 p.Ser450Pro missense_variant 0.11
tlyA 1917861 c.-79G>T upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102995 c.48A>G synonymous_variant 0.1
PPE35 2167695 p.Ile973Thr missense_variant 1.0
PPE35 2169857 c.756A>G synonymous_variant 0.5
PPE35 2170048 p.Leu189Val missense_variant 0.29
PPE35 2170053 p.Thr187Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.14
Rv2752c 3066158 p.Thr12Ala missense_variant 0.12
thyA 3074105 p.Pro123Ser missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474057 c.51C>T synonymous_variant 0.22
Rv3236c 3613286 c.-170C>G upstream_gene_variant 1.0
rpoA 3878281 p.Ile76Asn missense_variant 0.12
embC 4240495 c.633T>C synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245293 c.2061T>A synonymous_variant 0.17
embB 4245788 c.-726C>A upstream_gene_variant 1.0
embB 4247050 c.537C>T synonymous_variant 0.13
embB 4249037 p.Val842Leu missense_variant 0.29
embB 4249159 c.2646G>A synonymous_variant 0.12
aftB 4267150 p.Glu563* stop_gained 0.18
aftB 4267389 p.Gln483Arg missense_variant 0.4
ethA 4326287 p.Asp396Val missense_variant 0.17
ethA 4326932 p.Ile181Thr missense_variant 0.17
ethA 4327696 c.-223G>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408308 c.-106C>T upstream_gene_variant 0.18