TB-Profiler result

Run: SRR12199456
Summary

Run ID: SRR12199456

Sample name:

Date: 03-04-2023 06:41:37

Number of reads: 108209

Percentage reads mapped: 25.64

Strain: lineage1.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.1
lineage1.1.1 Indo-Oceanic EAI4;EAI5 RD239 0.15
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 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8323 p.Phe341Ser missense_variant 0.67
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776836 p.Val549Ile missense_variant 0.4
fbiC 1305446 p.Gly839Asp missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474244 n.587T>C non_coding_transcript_exon_variant 0.67
rrl 1474709 n.1052G>T non_coding_transcript_exon_variant 0.5
rrl 1476719 n.3062C>A non_coding_transcript_exon_variant 0.25
rpsA 1834319 p.Val260Ile missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169901 p.Gly238Trp missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.5
PPE35 2170053 p.Thr187Ser missense_variant 0.5
PPE35 2170649 c.-37T>G upstream_gene_variant 1.0
Rv1979c 2223144 p.Arg7Ser missense_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
alr 3841055 c.366C>G synonymous_variant 1.0
alr 3841539 c.-119C>T upstream_gene_variant 0.5
alr 3841546 c.-126C>A upstream_gene_variant 0.67
alr 3841612 c.-193_-192insC upstream_gene_variant 0.33
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4239742 c.-121A>T upstream_gene_variant 0.2
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4249129 p.His872Gln missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ethA 4327827 c.-354A>G upstream_gene_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0