TB-Profiler result

Run: ERR1199084
Summary

Run ID: ERR1199084

Sample name:

Date: 14-08-2022 01:28:51

Number of reads: 4178591

Percentage reads mapped: 93.38

Strain: lineage4.6.1.1

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.1 Euro-American T2-Uganda RD724 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
gyrA 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.38
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779371 p.Ala128Pro missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.11
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.44
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.52
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.54
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.31
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.17
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.15
rrs 1472333 n.488G>T non_coding_transcript_exon_variant 0.11
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.21
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.21
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.18
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.14
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.23
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.26
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.24
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.3
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.14
rpsA 1833383 c.-159C>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747263 c.336C>A synonymous_variant 0.14
Rv2752c 3064552 p.Arg547Pro missense_variant 0.25
Rv2752c 3064661 p.Val511Met missense_variant 0.96
thyA 3073806 c.666C>G synonymous_variant 0.21
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474400 p.Tyr132Asp missense_variant 0.18
rpoA 3878641 c.-135delG upstream_gene_variant 0.15
clpC1 4038857 c.1848C>A synonymous_variant 0.21
embC 4239842 c.-21C>A upstream_gene_variant 0.21
embC 4242425 p.Arg855Gly missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0