TB-Profiler result

Run: ERR4818714
Summary

Run ID: ERR4818714

Sample name:

Date: 01-04-2023 15:42:48

Number of reads: 2198533

Percentage reads mapped: 98.71

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 0.88 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
gyrB 5107 c.-133C>T upstream_gene_variant 1.0
gyrB 5401 c.162C>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7374 p.Gln25Glu missense_variant 1.0
rpoC 763355 c.-15G>A upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302983 p.Pro18Leu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.5
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.6
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.6
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.6
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.4
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.6
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.8
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.5
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.6
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.6
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.5
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.6
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 0.6
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.75
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.89
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.89
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.89
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.88
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.88
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrs 1472935 n.1090G>T non_coding_transcript_exon_variant 0.4
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.4
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.6
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.5
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.43
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.43
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.29
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.29
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.6
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.43
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.43
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.67
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.33
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.33
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.33
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.33
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.33
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.33
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.33
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.29
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.25
rrl 1474163 n.506C>T non_coding_transcript_exon_variant 1.0
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 1.0
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.75
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.75
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.75
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.67
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.67
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.67
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.67
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.67
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.33
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.43
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.44
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0