TB-Profiler result

Run: ERR4815836
Summary

Run ID: ERR4815836

Sample name:

Date: 01-04-2023 14:05:34

Number of reads: 1120013

Percentage reads mapped: 97.81

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 0.1 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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.12
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.12
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.11
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.11
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.11
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.14
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.12
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.12
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.12
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.11
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475544 n.1887A>C non_coding_transcript_exon_variant 0.15
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.2
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.22
rrl 1475743 n.2086T>C non_coding_transcript_exon_variant 0.33
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.38
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.29
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.5
rrl 1475783 n.2126T>C non_coding_transcript_exon_variant 0.38
rrl 1475794 n.2137A>G non_coding_transcript_exon_variant 0.3
rrl 1475879 n.2222T>C non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.12
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.19
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.19
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.11
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.1
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.1
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.1
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.1
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.1
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.17
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.24
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.21
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.1
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
kasA 2519362 c.1249delT frameshift_variant&stop_lost&splice_region_variant 0.11
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