TB-Profiler result

Run: SRR4033258
Summary

Run ID: SRR4033258

Sample name:

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

Number of reads: 1009935

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 0.97
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.95
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.95
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 5075 c.-165C>T upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8495 c.1194C>T synonymous_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 0.16
mshA 576036 p.Ala230Val missense_variant 0.2
rpoC 764359 c.992_998delACGGCGG frameshift_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.11
mmpL5 776505 c.1975delC frameshift_variant 0.11
mmpL5 777660 p.Ala274Val missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417241 p.Arg36Leu missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.86
inhA 1674468 c.271delG frameshift_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102681 p.Ala121Val missense_variant 0.1
katG 2155182 p.Lys310Asn missense_variant 0.12
katG 2155254 c.858C>A synonymous_variant 0.14
katG 2155504 p.Thr203Asn missense_variant 0.11
PPE35 2168149 p.Pro822Ser missense_variant 0.94
PPE35 2168590 p.Gln675* stop_gained 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2725954 c.-239C>T upstream_gene_variant 0.14
folC 2746623 p.Val326Phe missense_variant 0.13
pepQ 2859970 p.Ala150Val missense_variant 0.14
Rv2752c 3064969 p.Lys408Arg missense_variant 0.11
fbiD 3339040 c.-78T>C upstream_gene_variant 0.92
whiB7 3568680 c.-1C>T upstream_gene_variant 0.1
Rv3236c 3612977 p.Gly47Val missense_variant 0.11
fbiB 3642874 p.Leu447Arg missense_variant 0.94
ddn 3986817 c.-27C>T upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243875 p.Leu215Met missense_variant 0.1
embB 4246746 p.Asp78Gly missense_variant 0.1
ubiA 4269696 c.137delA frameshift_variant 0.14
ethA 4326785 p.Pro230Leu missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0