TB-Profiler result

Run: ERR10796622
Summary

Run ID: ERR10796622

Sample name:

Date: 31-03-2023 11:12:41

Number of reads: 6020315

Percentage reads mapped: 100.0

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 1472644 n.799C>T non_coding_transcript_exon_variant 0.11 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.17 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
mshA 576108 p.Ala254Gly missense_variant 0.42
mshA 576118 c.771C>T synonymous_variant 0.13
rpoB 761150 c.1344A>C synonymous_variant 0.1
rpoB 761153 c.1347G>C synonymous_variant 0.11
mmpL5 775639 p.Ile948Val 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 1472123 n.278A>T non_coding_transcript_exon_variant 0.16
rrs 1472141 n.296G>A non_coding_transcript_exon_variant 0.19
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.32
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.32
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.15
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.13
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.11
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.11
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.11
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.12
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.12
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.2
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.22
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.27
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.24
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.17
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.19
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.2
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.2
rrl 1475772 n.2115A>C non_coding_transcript_exon_variant 0.23
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.23
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.32
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.26
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 0.21
rrl 1475897 n.2240T>G non_coding_transcript_exon_variant 0.21
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.26
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.24
rrl 1475900 n.2243A>C non_coding_transcript_exon_variant 0.2
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.27
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.24
rrl 1475938 n.2281C>A non_coding_transcript_exon_variant 0.15
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.19
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.13
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.11
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.39
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.4
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.49
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.54
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.57
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.56
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.59
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.58
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.61
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.67
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.63
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.64
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.22
PPE35 2168149 p.Pro822Ser missense_variant 0.98
PPE35 2170065 p.Ala183Gly missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860155 c.264C>T synonymous_variant 0.14
fbiD 3339734 p.Ala206Gly missense_variant 0.4
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.4
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4242562 p.Trp900* stop_gained 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244400 c.1168C>T synonymous_variant 0.17
embA 4244559 p.Ile443Val missense_variant 0.11
embB 4247024 p.Pro171Ala missense_variant 0.25
embB 4247814 p.Ala434Val missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0