TB-Profiler result

Run: SRR14088360
Summary

Run ID: SRR14088360

Sample name:

Date: 03-04-2023 09:45:36

Number of reads: 1335753

Percentage reads mapped: 98.5

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
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
rpoB 759620 c.-187A>C upstream_gene_variant 0.27
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775981 p.Leu834Met missense_variant 0.15
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777820 c.661C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801005 p.Leu66Pro missense_variant 0.13
rplC 801396 c.588T>C synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473537 n.-121C>T upstream_gene_variant 0.12
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.11
rrl 1474497 n.840G>T non_coding_transcript_exon_variant 0.11
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.11
rrl 1474520 n.863A>C non_coding_transcript_exon_variant 0.12
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.12
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.12
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.12
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.12
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.13
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.13
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.12
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.13
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.14
rrl 1475871 n.2214T>C non_coding_transcript_exon_variant 0.14
rrl 1475877 n.2220C>G non_coding_transcript_exon_variant 0.13
rrl 1475880 n.2223C>T non_coding_transcript_exon_variant 0.13
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.13
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.13
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.12
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918606 p.Val223Ile missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167763 p.Ile950Val missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168651 p.Leu654Phe missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.19
PPE35 2169293 c.1320T>C synonymous_variant 0.2
PPE35 2169910 p.Asn235Tyr missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.34
PPE35 2170053 p.Thr187Ser missense_variant 0.34
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518685 p.Asp191Tyr missense_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2860399 p.Arg7Gln missense_variant 1.0
Rv2752c 3065672 c.519delC frameshift_variant 0.13
Rv2752c 3065688 c.504C>A synonymous_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449053 p.Gly184Cys missense_variant 0.22
Rv3083 3449286 p.Trp261Cys missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
rpoA 3878559 c.-53delC upstream_gene_variant 0.29
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245031 c.1800delA frameshift_variant 0.11
ethA 4326153 p.Arg441Cys missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0