TB-Profiler result

Run: ERR2513384
Summary

Run ID: ERR2513384

Sample name:

Date: 31-03-2023 19:38:41

Number of reads: 1103422

Percentage reads mapped: 98.28

Strain: lineage4.8.2

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
lineage4.8.2 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 0.31 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 8135 c.834C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776891 p.Gln530His missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.4
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.29
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.36
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.31
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.38
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.3
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.33
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.27
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.33
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.33
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.4
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.27
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.36
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.36
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.36
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.29
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.4
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.4
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.25
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.15
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.14
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.18
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.17
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.17
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.23
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.23
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.23
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.23
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.23
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.25
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.25
rrs 1473034 n.1189A>G non_coding_transcript_exon_variant 0.3
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.4
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.27
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.4
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.4
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.36
rrl 1473951 n.294G>A non_coding_transcript_exon_variant 0.67
rrl 1474411 n.754C>G non_coding_transcript_exon_variant 0.29
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4241992 c.2130T>C synonymous_variant 0.1
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