TB-Profiler result

Run: SRR12199487
Summary

Run ID: SRR12199487

Sample name:

Date: 03-04-2023 06:43:23

Number of reads: 107397

Percentage reads mapped: 95.76

Strain:

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
lineage1.1.2 Indo-Oceanic EAI3;EAI5 RD239 0.23
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
gyrB 6124 c.885C>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9047 c.1746C>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620495 p.Arg202Gln missense_variant 0.33
rpoB 760490 c.684C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 1.0
mmpL5 776395 p.Phe696Leu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.4
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.25
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.25
inhA 1674394 p.Val65Met missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102276 p.Gly256Asp missense_variant 0.5
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169369 p.Gly415Ala missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 1.0
PPE35 2170053 p.Thr187Ser missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289412 c.-171C>T upstream_gene_variant 0.33
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
thyA 3073719 c.753C>T synonymous_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087352 p.Thr178Ile missense_variant 0.29
ald 3087857 p.His346Gln missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.8
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.2
clpC1 4039178 c.1527G>C synonymous_variant 0.67
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245459 p.Pro743Ser missense_variant 0.33
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ethA 4328467 c.-994G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0