TB-Profiler result

Run: SRR4033502
Summary

Run ID: SRR4033502

Sample name:

Date: 04-04-2023 06:08:15

Number of reads: 1023557

Percentage reads mapped: 99.68

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 7436 c.135C>A synonymous_variant 0.11
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761914 p.Asp703Val missense_variant 0.14
rpoB 762010 p.Leu735Pro missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766748 p.Pro1127Ser missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776563 p.Glu640* stop_gained 0.13
mmpL5 776867 c.1614G>T synonymous_variant 0.14
mmpL5 777588 p.Ala298Val missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304017 p.Asp363Tyr missense_variant 0.1
embR 1417173 p.Leu59Ile missense_variant 0.11
embR 1417363 c.-16C>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1673699 p.Ser87Tyr missense_variant 0.12
inhA 1673715 c.-487C>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167679 c.2934G>T synonymous_variant 0.25
PPE35 2169320 p.Leu431Phe missense_variant 0.31
PPE35 2169416 c.1197G>T synonymous_variant 0.13
Rv1979c 2221764 c.1400delA frameshift_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714974 p.Ala120Asp missense_variant 0.1
thyA 3073810 p.Ser221Asn missense_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 0.88
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087381 p.Asn188Asp missense_variant 0.12
Rv3083 3448728 c.225C>A synonymous_variant 0.12
Rv3083 3448959 c.456C>T synonymous_variant 0.12
Rv3083 3449967 c.1464G>A synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474275 p.Pro90His missense_variant 0.18
whiB7 3568805 c.-126A>G upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039803 p.Ala301Val missense_variant 0.12
clpC1 4040486 c.219G>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338416 p.Gln36* stop_gained 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0