TB-Profiler result

Run: SRR6855784
Summary

Run ID: SRR6855784

Sample name:

Date: 04-04-2023 17:45:35

Number of reads: 503710

Percentage reads mapped: 99.61

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 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 7323 p.Pro8Ala missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 762039 p.His745Asn missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776659 p.Asp608Asn missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417029 p.Asp107His missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474873 n.1216G>T non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155548 c.564C>T synonymous_variant 0.11
PPE35 2167658 c.2955C>T synonymous_variant 0.11
PPE35 2167728 p.Ala962Val missense_variant 0.2
PPE35 2167868 c.2745A>T synonymous_variant 0.15
PPE35 2168501 p.Phe704Leu missense_variant 1.0
PPE35 2170530 p.Ala28Val missense_variant 0.17
PPE35 2170714 c.-102A>G upstream_gene_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2747458 c.139_140delCT frameshift_variant 0.11
Rv2752c 3065777 p.Phe139Val missense_variant 1.0
Rv2752c 3066040 p.Gly51Val missense_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474792 c.786G>T synonymous_variant 0.18
fbiB 3642265 p.Gly244Val missense_variant 0.12
rpoA 3878381 c.127C>T synonymous_variant 1.0
clpC1 4040901 c.-197C>T upstream_gene_variant 0.15
embA 4242346 c.-887C>T upstream_gene_variant 0.12
embA 4242497 c.-736A>C upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243290 p.Ser20Ala missense_variant 1.0
embA 4244538 p.Ala436Pro missense_variant 0.12
embA 4244949 p.Gln573Glu missense_variant 0.1
embB 4247121 p.Ser203Leu missense_variant 1.0
embB 4247456 p.Tyr315His missense_variant 0.1
aftB 4268924 c.-88C>G upstream_gene_variant 0.15
ethR 4327913 p.Arg122Leu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408397 c.-195A>G upstream_gene_variant 0.96