TB-Profiler result

Run: ERR4818869
Summary

Run ID: ERR4818869

Sample name:

Date: 01-04-2023 15:48:22

Number of reads: 7041146

Percentage reads mapped: 99.5

Strain: lineage4.2.2.2

Drug-resistance: Other

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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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 0.99
lineage4.2.2.2 Euro-American (Ural) T;LAM7-TUR 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.46 streptomycin
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 8688 p.Ala463Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576077 c.730C>T synonymous_variant 1.0
rpoC 767228 p.Ser1287Gln missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.33
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.45
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.45
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.29
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.48
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.43
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.79
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.68
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.64
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.58
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.27
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.5
rrs 1472892 n.1047T>C non_coding_transcript_exon_variant 0.31
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.18
rrs 1472951 n.1106T>C non_coding_transcript_exon_variant 0.31
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.3
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.27
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.15
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.11
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.14
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.12
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.96
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.97
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.96
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.96
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.94
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.89
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.65
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.38
rrl 1476542 n.2885T>C non_coding_transcript_exon_variant 0.11
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.62
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.65
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.65
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.65
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.62
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.58
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.58
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.57
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.55
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.58
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.58
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.58
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.59
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065353 p.Arg280Gln missense_variant 1.0
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0