TB-Profiler result

Run: SRR6982473
Summary

Run ID: SRR6982473

Sample name:

Date: 04-04-2023 18:38:32

Number of reads: 422864

Percentage reads mapped: 98.97

Strain: lineage4.1.1.3

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 0.97
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.99
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 0.98
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491734 p.Arg318Cys missense_variant 0.12
ccsA 620721 c.831G>A synonymous_variant 0.1
rpoB 761609 p.Met601Ile missense_variant 0.11
rpoC 763977 p.Arg203His missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 767155 c.3786C>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305006 c.2076A>G synonymous_variant 0.12
Rv1258c 1406943 c.397_398insGC frameshift_variant 0.1
Rv1258c 1406946 p.Ala132Gly missense_variant 0.1
embR 1416710 p.Thr213Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473762 n.105C>A non_coding_transcript_exon_variant 0.2
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.11
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.1
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.11
inhA 1674760 p.Asn187Asp missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103059 c.-17G>A upstream_gene_variant 0.12
PPE35 2167804 p.Gly937Arg missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746912 c.687C>T synonymous_variant 0.11
folC 2747547 p.Val18Met missense_variant 0.1
pepQ 2860167 c.252C>T synonymous_variant 0.11
Rv2752c 3064573 p.Trp540Leu missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087531 p.Ala238Pro missense_variant 0.12
Rv3083 3448690 p.Gly63Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.94
fprA 3474115 p.Asp37Asn missense_variant 1.0
Rv3236c 3612792 p.Trp109Arg missense_variant 0.4
rpoA 3878467 p.Leu14Arg missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243289 c.57C>G synonymous_variant 0.1
embA 4243583 c.351G>A synonymous_variant 0.11
embA 4245700 p.Gly823Val missense_variant 0.13
embB 4248830 p.Ser773Thr missense_variant 0.11
embB 4249408 c.2895G>A synonymous_variant 0.91
embB 4249678 c.3165C>A synonymous_variant 0.88
aftB 4267446 p.Pro464Leu missense_variant 0.17
aftB 4268777 c.60G>A synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0