TB-Profiler result

Run: SRR7131231
Summary

Run ID: SRR7131231

Sample name:

Date: 04-04-2023 18:49:50

Number of reads: 3321809

Percentage reads mapped: 99.99

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
gid 4408100 c.102delG frameshift_variant 1.0 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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778631 p.Leu92Ser missense_variant 1.0
mmpS5 778640 p.Ser89Leu 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 1472150 n.305T>A non_coding_transcript_exon_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.12
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.13
rrl 1474353 n.696A>T non_coding_transcript_exon_variant 0.13
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.14
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.13
rrl 1474383 n.726G>T non_coding_transcript_exon_variant 0.13
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.1
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.16
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.2
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.14
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.35
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.35
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.31
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.2
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.19
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.13
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.13
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.11
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.11
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.11
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.18
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.13
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3067180 c.-989C>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448499 c.-4_*1407del transcript_ablation 1.0