TB-Profiler result

Run: SRR4033272
Summary

Run ID: SRR4033272

Sample name:

Date: 04-04-2023 05:57:37

Number of reads: 557753

Percentage reads mapped: 99.78

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
gyrB 5058 c.-182C>T upstream_gene_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 761915 p.Asp703Glu missense_variant 0.14
rpoB 763126 p.Pro1107Leu missense_variant 0.12
rpoC 764221 c.852C>T synonymous_variant 0.33
rpoC 767234 p.Glu1289* stop_gained 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777292 p.Ala397Pro missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303216 c.286C>A synonymous_variant 0.15
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 0.18
rrl 1475432 n.1775G>T non_coding_transcript_exon_variant 0.11
rrl 1476729 n.3074delG non_coding_transcript_exon_variant 0.18
fabG1 1673684 p.Val82Ala missense_variant 0.14
fabG1 1673695 c.257delT frameshift_variant 0.2
rpsA 1834166 p.Gly209Ser missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102723 p.Thr107Ile missense_variant 0.4
katG 2154892 p.Glu407Gly missense_variant 0.2
PPE35 2167697 c.2915delA frameshift_variant 0.15
PPE35 2168028 c.2583_2584delAC frameshift_variant 0.12
PPE35 2168084 c.2529G>A synonymous_variant 0.18
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169898 c.714delG frameshift_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289714 c.-473G>A upstream_gene_variant 0.29
kasA 2518309 p.Lys65Asn missense_variant 0.12
folC 2747212 c.387G>A synonymous_variant 0.12
pepQ 2859929 p.Arg164Trp missense_variant 0.18
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fprA 3475148 p.Thr381Ile missense_variant 0.33
fbiB 3640980 c.-555C>A upstream_gene_variant 0.17
fbiA 3641222 p.Pro227His missense_variant 0.12
fbiB 3642874 p.Leu447Arg missense_variant 1.0
clpC1 4040495 c.210C>A synonymous_variant 0.11
panD 4044324 c.-43C>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242931 c.-302G>A upstream_gene_variant 0.17
embB 4249194 p.Pro894His missense_variant 0.11
aftB 4268767 p.Arg24Ser missense_variant 0.67
ubiA 4269529 p.Ala102Gly missense_variant 0.2
ethA 4326999 p.Gly159Trp missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0