TB-Profiler result

Run: SRR4033459
Summary

Run ID: SRR4033459

Sample name:

Date: 04-04-2023 06:06:45

Number of reads: 1252973

Percentage reads mapped: 99.63

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 0.99
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 7897 p.Asp199Gly missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575406 p.Arg20Pro missense_variant 0.12
ccsA 619833 c.-58T>A upstream_gene_variant 0.13
rpoB 762138 p.Leu778Val missense_variant 0.12
rpoC 763477 p.Tyr36* stop_gained 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777546 p.Gly312Asp missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.14
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.17
rrl 1474983 n.1326A>G non_coding_transcript_exon_variant 0.33
rrl 1475473 n.1816A>T non_coding_transcript_exon_variant 0.25
rrl 1475855 n.2198A>C non_coding_transcript_exon_variant 0.22
rrl 1475857 n.2200C>T non_coding_transcript_exon_variant 0.22
rrl 1475923 n.2266T>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918259 p.His107Arg missense_variant 0.11
ndh 2102149 p.Asp298Glu missense_variant 0.12
PPE35 2168583 p.Gly677Asp missense_variant 0.12
PPE35 2170209 p.Ala135Gly missense_variant 0.12
PPE35 2170574 c.39C>A synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289356 c.-115G>A upstream_gene_variant 0.14
pepQ 2860263 c.156C>G synonymous_variant 0.11
thyX 3067372 p.Trp192Arg missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339579 c.462C>T synonymous_variant 0.14
fbiD 3339593 p.His159Arg missense_variant 0.14
fbiD 3339599 p.Arg161Leu missense_variant 0.17
fbiD 3339608 p.Pro164Leu missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474862 p.Arg286Gly missense_variant 0.11
fbiB 3641121 c.-414C>A upstream_gene_variant 0.13
rpoA 3878373 c.135G>C synonymous_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240837 c.975C>T synonymous_variant 0.12
embC 4241157 p.Gly432Ala missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244868 p.Ser546Gly missense_variant 0.13
ethA 4328439 c.-966C>T upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.97