TB-Profiler result

Run: SRR2101454
Summary

Run ID: SRR2101454

Sample name:

Date: 03-04-2023 23:43:40

Number of reads: 449244

Percentage reads mapped: 99.76

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575690 p.Gly115Trp missense_variant 0.2
mshA 576186 p.Pro280His missense_variant 0.25
rpoB 760850 c.1044G>A synonymous_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766045 p.Gln892His missense_variant 0.13
rpoC 766559 p.Ile1064Val missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776516 p.Met655Ile missense_variant 0.1
mmpR5 778019 c.-971C>A upstream_gene_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304500 p.Ala524Thr missense_variant 0.15
fbiC 1305249 c.2319G>T synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475271 n.1614A>G non_coding_transcript_exon_variant 0.14
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 0.33
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155343 p.Met257Val missense_variant 0.14
katG 2155531 p.Asp194Val missense_variant 0.13
Rv1979c 2222847 p.Trp106Cys missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289483 c.-242G>A upstream_gene_variant 0.13
eis 2714891 p.Arg148Ser missense_variant 0.12
eis 2714934 c.399C>A synonymous_variant 0.11
eis 2715399 c.-67T>C upstream_gene_variant 0.12
folC 2746223 c.1375delG frameshift_variant 0.22
Rv2752c 3064745 p.Thr483Pro missense_variant 0.13
Rv2752c 3066161 p.Leu11Met missense_variant 0.15
Rv2752c 3066339 c.-148G>T upstream_gene_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568539 c.141G>A synonymous_variant 0.11
whiB7 3568548 c.132G>T synonymous_variant 0.11
Rv3236c 3612843 p.Ser92Thr missense_variant 0.17
Rv3236c 3612848 p.Leu90Pro missense_variant 0.17
Rv3236c 3613217 c.-101G>T upstream_gene_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040824 c.-120C>T upstream_gene_variant 0.11
embC 4241830 p.Lys656Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 0.95
embC 4242672 p.Pro937Gln missense_variant 0.19
embC 4242851 p.Phe997Leu missense_variant 0.13
embA 4245853 p.Ala874Gly missense_variant 0.17
embB 4248005 p.Thr498Ala missense_variant 0.1
whiB6 4338208 p.Pro105Gln missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0