TB-Profiler result

Run: ERR2513005
Summary

Run ID: ERR2513005

Sample name:

Date: 31-03-2023 19:23:45

Number of reads: 2339960

Percentage reads mapped: 98.08

Strain: lineage4.6

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
lineage4.6 Euro-American T;LAM 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 0.73 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.37
mshA 575434 c.87C>T synonymous_variant 1.0
rpoC 763644 p.Met92Thr missense_variant 0.97
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 1472108 n.263C>T non_coding_transcript_exon_variant 0.22
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.3
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.3
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.3
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.25
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.4
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.33
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.56
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.56
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.56
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.62
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.71
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.71
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.6
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.29
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.71
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.75
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.75
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.57
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 1.0
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.83
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.83
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.67
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.67
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.5
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.67
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.67
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.67
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.5
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.75
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.67
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.86
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.67
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.67
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.5
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.4
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.31
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.15
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.15
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.18
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.17
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.23
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.38
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.29
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.67
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.67
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.5
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.5
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168080 p.Thr845Ala missense_variant 1.0
PPE35 2170198 p.Ala139Thr missense_variant 0.97
PPE35 2170792 c.-180T>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860360 p.Asp20Gly missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612698 p.Leu140Arg missense_variant 0.97
fbiB 3642772 p.Asp413Ala missense_variant 0.35
embA 4242643 c.-590C>T upstream_gene_variant 0.98
embA 4244970 c.1738C>T synonymous_variant 1.0
aftB 4267118 c.1719G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0