TB-Profiler result

Run: SRR4033215
Summary

Run ID: SRR4033215

Sample name:

Date: 04-04-2023 05:55:11

Number of reads: 874185

Percentage reads mapped: 99.77

Strain: lineage4.8.1

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
lineage4.8.1 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
fgd1 490922 p.Gln47Pro missense_variant 0.11
mshA 575937 p.Pro197Gln missense_variant 0.11
rpoB 761482 p.Ala559Gly missense_variant 0.25
rpoC 763800 p.Arg144His missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776516 p.Met655Ile missense_variant 0.1
mmpL5 777751 p.Arg244Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303134 c.204G>T synonymous_variant 0.12
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 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102351 p.Arg231Leu missense_variant 0.18
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518348 c.234A>T synonymous_variant 0.14
folC 2747659 c.-62delG upstream_gene_variant 0.14
ribD 2987120 c.282C>T synonymous_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.22
thyA 3074284 p.Leu63Ser missense_variant 0.11
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fprA 3475141 p.Val379Ile missense_variant 0.11
Rv3236c 3612289 c.828G>T synonymous_variant 0.13
fbiB 3642874 p.Leu447Arg missense_variant 1.0
rpoA 3878418 c.90C>T synonymous_variant 0.14
clpC1 4038857 c.1848C>A synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268625 p.Gly71Asp missense_variant 0.11
ubiA 4269614 p.Asp74Asn missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407571 p.Ile211Thr missense_variant 0.14
gid 4407585 c.618A>G synonymous_variant 0.13
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0