TB-Profiler result

Run: SRR6982062
Summary

Run ID: SRR6982062

Sample name:

Date: 04-04-2023 18:26:05

Number of reads: 470011

Percentage reads mapped: 99.46

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
fgd1 490715 c.-68A>G upstream_gene_variant 0.17
rpoB 762150 p.Gly782Ser missense_variant 0.13
rpoC 764966 p.Asn533Tyr missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766409 p.Thr1014Ser missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776167 p.Asn772Asp missense_variant 0.11
mmpL5 778203 p.Ile93Asn missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416801 p.Ala183Ser missense_variant 0.17
embR 1416906 c.441delG frameshift_variant 0.2
embR 1417545 c.-198A>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102769 p.Ile92Val missense_variant 0.1
katG 2155572 c.540G>C synonymous_variant 0.11
katG 2156281 c.-170C>A upstream_gene_variant 0.17
PPE35 2167754 c.2859C>T synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.15
kasA 2518609 p.Met165Ile missense_variant 0.15
folC 2746245 p.Ala452Thr missense_variant 0.2
folC 2746672 c.927C>G synonymous_variant 0.12
pepQ 2860415 p.Thr2Ala missense_variant 0.22
ribD 2987129 c.291G>A synonymous_variant 0.12
ribD 2987163 p.Arg109* stop_gained 0.13
Rv2752c 3065296 p.Gln299Arg missense_variant 0.14
Rv2752c 3066240 c.-49G>C upstream_gene_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339010 c.-108T>C upstream_gene_variant 0.12
fbiD 3339749 p.Val211Asp missense_variant 0.13
fprA 3473981 c.-26G>A upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474638 p.Glu211Gly missense_variant 0.11
whiB7 3568419 c.261C>T synonymous_variant 0.13
fbiB 3642774 p.Leu414Val missense_variant 0.13
rpoA 3878203 p.Pro102Leu missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
panD 4044084 p.Ser66Arg missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267534 p.Met435Val missense_variant 0.15
aftB 4268720 c.117C>G synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408246 c.-44C>T upstream_gene_variant 0.1