TB-Profiler result

Run: SRR2100073
Summary

Run ID: SRR2100073

Sample name:

Date: 03-04-2023 22:44:34

Number of reads: 7712812

Percentage reads mapped: 99.5

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 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
mshA 575309 c.-39C>G upstream_gene_variant 0.17
rpoB 759620 c.-187A>C upstream_gene_variant 0.35
rpoC 762836 c.-534C>G upstream_gene_variant 0.23
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
embR 1417136 p.Ser71Ile missense_variant 0.2
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.21
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.16
inhA 1674892 p.Asn231Asp missense_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.24
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.35
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.34
eis 2715586 c.-254G>C upstream_gene_variant 0.4
ribD 2987307 p.Ala157Pro missense_variant 0.16
Rv2752c 3064552 p.Arg547Pro missense_variant 0.22
Rv2752c 3064741 p.Gly484Ala missense_variant 0.3
ald 3086767 c.-53A>C upstream_gene_variant 1.0
fbiD 3339335 p.Ala73Gly missense_variant 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.33
fbiB 3641955 p.Gly141Arg missense_variant 0.21
fbiB 3642734 c.1200G>C synonymous_variant 0.17
clpC1 4038857 c.1848C>A synonymous_variant 0.2
clpC1 4039932 p.Gly258Val missense_variant 0.32
embC 4239842 c.-21C>A upstream_gene_variant 0.18
embC 4241056 c.1194C>G synonymous_variant 0.18
embC 4241456 p.Ala532Pro missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.23
embA 4243977 p.Ala249Pro missense_variant 0.19
aftB 4267715 c.1122G>A synonymous_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.14
ethA 4327672 c.-199G>A upstream_gene_variant 0.36
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0