TB-Profiler result

Run: SRR8380944
Summary

Run ID: SRR8380944

Sample name:

Date: 18-08-2022 11:28:13

Number of reads: 2062445

Percentage reads mapped: 88.65

Strain: lineage1.1.2

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
lineage1 Indo-Oceanic EAI RD239 0.97
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.98
lineage1.1.2 Indo-Oceanic EAI3;EAI5 RD239 0.98
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 0.99
gyrB 6124 c.885C>T synonymous_variant 0.99
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.91
gyrA 9047 c.1746C>T synonymous_variant 0.96
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9443 c.2142G>A synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576000 p.Asp218Ala missense_variant 0.98
rpoB 760490 c.684C>T synonymous_variant 0.98
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.97
rpoC 763886 c.517C>A synonymous_variant 0.97
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 765499 c.2130C>G synonymous_variant 0.13
rpoC 765541 c.2172C>G synonymous_variant 0.14
rpoC 765556 c.2187G>C synonymous_variant 0.14
rpoC 766774 c.3405T>C synonymous_variant 0.13
rpoC 766843 c.3474T>G synonymous_variant 0.15
rpoC 766861 c.3492G>C synonymous_variant 0.14
rpoC 766864 c.3495G>C synonymous_variant 0.14
rpoC 766894 c.3525T>C synonymous_variant 0.13
rpoC 766895 c.3526T>C synonymous_variant 0.15
rpoC 766900 c.3531T>C synonymous_variant 0.15
rpoC 766903 c.3534C>T synonymous_variant 0.15
rpoC 766918 c.3549C>T synonymous_variant 0.15
rpoC 766933 c.3564A>G synonymous_variant 0.13
rpoC 766945 c.3576A>G synonymous_variant 0.14
rpoC 766996 c.3627C>T synonymous_variant 0.16
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.18
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.16
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.14
rrl 1475988 n.2331A>T non_coding_transcript_exon_variant 0.15
rrl 1476040 n.2383C>T non_coding_transcript_exon_variant 0.15
rrl 1476046 n.2389G>A non_coding_transcript_exon_variant 0.16
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.15
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.13
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.16
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.16
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.16
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.16
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.15
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ddn 3987057 p.Arg72Trp missense_variant 0.96
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 0.99
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269606 c.228T>C synonymous_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 0.99