TB-Profiler result

Run: ERR2514838
Summary

Run ID: ERR2514838

Sample name:

Date: 31-03-2023 20:35:47

Number of reads: 2500223

Percentage reads mapped: 98.81

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 0.42 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 7158 c.1931_1933delCCG disruptive_inframe_deletion 0.83
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 764074 c.705C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778651 c.-171C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.45
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.42
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.36
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.42
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.5
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.42
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.42
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.42
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.42
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.42
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.43
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.5
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.38
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.38
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.22
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.2
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.23
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.33
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.33
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.25
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.25
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.2
rrs 1473289 n.1444_1445insTTTTG non_coding_transcript_exon_variant 0.2
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 0.22
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.2
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.2
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168261 p.Phe784Leu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiA 3640582 p.Arg14Gly 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