TB-Profiler result

Run: SRR2101353
Summary

Run ID: SRR2101353

Sample name:

Date: 03-04-2023 23:40:08

Number of reads: 740796

Percentage reads mapped: 99.31

Strain: lineage4.8

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
lineage4 Euro-American LAM;T;S;X;H None 0.99
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.97
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 7717 p.Met139Thr missense_variant 0.93
gyrA 9304 p.Gly668Asp missense_variant 0.11
fgd1 491293 p.Pro171Thr missense_variant 0.11
mshA 576316 c.969A>G synonymous_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.11
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.1
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.1
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.1
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.12
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.11
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.15
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.11
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.11
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.11
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.12
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.11
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.11
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.11
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.11
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.11
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.11
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.11
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.11
inhA 1674830 p.Glu210Val missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167846 p.Ser923Gly missense_variant 0.15
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169149 c.1464G>C synonymous_variant 1.0
PPE35 2170677 c.-65G>T upstream_gene_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 0.9
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249754 p.Gly1081Ser missense_variant 0.22
aftB 4267455 p.Asp461Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0