TB-Profiler result

Run: SRR18911980
Summary

Run ID: SRR18911980

Sample name:

Date: 03-04-2023 20:47:30

Number of reads: 2707938

Percentage reads mapped: 94.92

Strain: lineage2.2.2

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
lineage2 East-Asian Beijing RD105 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.2 East-Asian (Beijing) Beijing-RD105/RD207 RD105;RD207 0.99
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrs 1472028 n.183A>T non_coding_transcript_exon_variant 0.23
rrs 1472030 n.185G>A non_coding_transcript_exon_variant 0.23
rrs 1472031 n.186G>A non_coding_transcript_exon_variant 0.23
rrs 1472034 n.189T>C non_coding_transcript_exon_variant 0.22
rrs 1472044 n.199G>C non_coding_transcript_exon_variant 0.21
rrs 1472053 n.211_212delGC non_coding_transcript_exon_variant 0.22
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.19
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.21
rrl 1473937 n.280C>T non_coding_transcript_exon_variant 0.12
rrl 1473944 n.287G>A non_coding_transcript_exon_variant 0.12
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.12
rrl 1474051 n.394T>C non_coding_transcript_exon_variant 0.12
rrl 1474054 n.397T>C non_coding_transcript_exon_variant 0.12
rrl 1474056 n.399T>C non_coding_transcript_exon_variant 0.13
rrl 1474111 n.454T>C non_coding_transcript_exon_variant 0.16
rrl 1474112 n.455T>A non_coding_transcript_exon_variant 0.16
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.12
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.14
rrl 1474956 n.1299C>T non_coding_transcript_exon_variant 0.14
rrl 1474959 n.1302C>T non_coding_transcript_exon_variant 0.12
rrl 1474962 n.1306delG non_coding_transcript_exon_variant 0.12
rrl 1474970 n.1313G>A non_coding_transcript_exon_variant 0.15
rrl 1474991 n.1334T>C non_coding_transcript_exon_variant 0.19
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.18
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.21
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.24
rrl 1476704 n.3053dupC non_coding_transcript_exon_variant 0.24
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878313 c.195G>C synonymous_variant 0.15
rpoA 3878322 c.186A>G synonymous_variant 0.15
rpoA 3878331 c.177A>G synonymous_variant 0.14
rpoA 3878334 c.174T>C synonymous_variant 0.14
rpoA 3878337 c.171T>C synonymous_variant 0.14
rpoA 3878346 c.162T>C synonymous_variant 0.16
rpoA 3878364 c.144A>G synonymous_variant 0.14
rpoA 3878367 c.141C>G synonymous_variant 0.14
rpoA 3878370 c.138T>C synonymous_variant 0.14
rpoA 3878376 c.132G>C synonymous_variant 0.14
rpoA 3878385 c.123C>G synonymous_variant 0.13
rpoA 3878391 c.117T>C synonymous_variant 0.14
rpoA 3878396 c.112C>T synonymous_variant 0.15
rpoA 3878436 c.72A>G synonymous_variant 0.14
rpoA 3878454 c.54A>C synonymous_variant 0.13
rpoA 3878672 c.-165A>T upstream_gene_variant 0.12
embC 4240394 p.Glu178Lys missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0