TB-Profiler result

Run: ERR9786443
Summary

Run ID: ERR9786443

Sample name:

Date: 02-04-2023 12:25:48

Number of reads: 1942629

Percentage reads mapped: 92.82

Strain: lineage4.8

Drug-resistance: Sensitive

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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 0.99
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
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
rpoB 760283 c.477G>C synonymous_variant 0.15
rpoB 760319 c.513C>T synonymous_variant 0.13
rpoB 760328 c.522G>C synonymous_variant 0.14
rpoB 760331 c.525G>C synonymous_variant 0.14
rpoB 760340 c.534G>T synonymous_variant 0.14
rpoB 760361 c.555T>C synonymous_variant 0.14
rpoB 762140 c.2334G>C synonymous_variant 0.13
rpoB 762143 c.2337T>C synonymous_variant 0.14
rpoC 762989 c.-381G>C upstream_gene_variant 0.15
rpoC 762995 c.-375G>T upstream_gene_variant 0.15
rpoC 763013 c.-357C>G upstream_gene_variant 0.16
rpoC 763028 c.-342T>C upstream_gene_variant 0.16
rpoC 763031 c.-339T>G upstream_gene_variant 0.16
rpoC 763034 c.-336C>G upstream_gene_variant 0.16
rpoC 763040 c.-330C>G upstream_gene_variant 0.17
rpoC 763070 c.-300T>C upstream_gene_variant 0.18
rpoC 763085 c.-285C>G upstream_gene_variant 0.17
rpoC 763115 c.-255T>C upstream_gene_variant 0.14
rpoC 763136 c.-234C>T upstream_gene_variant 0.14
rpoC 763148 c.-222G>C upstream_gene_variant 0.14
rpoC 763441 c.72C>T synonymous_variant 0.17
rpoC 763444 c.75T>C synonymous_variant 0.17
rpoC 763456 c.87A>G synonymous_variant 0.15
rpoC 763486 c.117T>G synonymous_variant 0.14
rpoC 763528 c.159G>A synonymous_variant 0.16
rpoC 763546 c.177A>G synonymous_variant 0.16
rpoC 763570 c.201G>C synonymous_variant 0.18
rpoC 763573 c.204G>C synonymous_variant 0.18
rpoC 763594 c.225C>T synonymous_variant 0.19
rpoC 763603 c.234C>T synonymous_variant 0.17
rpoC 763633 c.264T>C synonymous_variant 0.15
rpoC 763636 c.267T>C synonymous_variant 0.16
rpoC 764809 c.1440C>T synonymous_variant 0.15
rpoC 764815 c.1446A>G synonymous_variant 0.16
rpoC 764827 c.1458G>C synonymous_variant 0.16
rpoC 764932 c.1563C>A synonymous_variant 0.14
rpoC 764935 c.1566T>C synonymous_variant 0.14
rpoC 766327 c.2958C>A synonymous_variant 0.13
rpoC 766345 c.2976T>C synonymous_variant 0.14
rpoC 766357 c.2988C>T synonymous_variant 0.14
rpoC 766861 c.3492G>C synonymous_variant 0.15
rpoC 766864 c.3495G>C synonymous_variant 0.15
rpoC 766876 c.3507C>T synonymous_variant 0.17
rpoC 766882 c.3513C>T synonymous_variant 0.17
rpoC 766900 c.3531T>C synonymous_variant 0.2
rpoC 766933 c.3564A>G synonymous_variant 0.22
rpoC 766945 c.3576A>G synonymous_variant 0.23
rpoC 766963 c.3594T>C synonymous_variant 0.23
rpoC 766972 c.3603G>C synonymous_variant 0.21
rpoC 766996 c.3627C>T synonymous_variant 0.24
rpoC 767009 c.3640_3642delTCGinsAGC synonymous_variant 0.21
rpoC 767014 c.3645G>C synonymous_variant 0.21
rpoC 767033 c.3664_3666delTCGinsAGC synonymous_variant 0.2
rpoC 767059 c.3690T>G synonymous_variant 0.16
rpoC 767062 c.3693C>A synonymous_variant 0.15
rpoC 767098 c.3729T>C synonymous_variant 0.15
rpoC 767134 c.3765C>A synonymous_variant 0.15
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 1472969 n.1124A>G non_coding_transcript_exon_variant 0.16
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.15
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.16
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.15
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.17
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.17
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.19
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.16
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.16
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.15
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.15
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.15
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.13
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.16
rrl 1475006 n.1349A>T non_coding_transcript_exon_variant 0.17
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.15
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.17
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.16
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.19
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.19
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.13
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.13
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.16
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.15
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.17
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.14
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.16
rpsA 1834451 c.910T>C synonymous_variant 0.14
rpsA 1834513 c.972C>G synonymous_variant 0.18
rpsA 1834528 c.987T>C synonymous_variant 0.18
rpsA 1834540 c.999G>C synonymous_variant 0.17
rpsA 1834546 c.1005T>C synonymous_variant 0.16
rpsA 1834555 c.1014T>G synonymous_variant 0.15
rpsA 1834606 c.1065C>G synonymous_variant 0.15
rpsA 1834609 c.1068T>C synonymous_variant 0.16
rpsA 1834633 c.1092A>G synonymous_variant 0.15
rpsA 1834639 c.1098T>C synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289859 c.-618C>T upstream_gene_variant 0.98
kasA 2517989 c.-126T>C upstream_gene_variant 0.15
kasA 2517993 c.-122G>T upstream_gene_variant 0.15
thyX 3067391 c.555G>C synonymous_variant 0.15
thyX 3067394 c.552G>C synonymous_variant 0.15
ald 3087095 c.276C>T synonymous_variant 1.0
rpoA 3878051 p.Arg153Trp missense_variant 0.95
rpoA 3878217 c.291A>G synonymous_variant 0.14
rpoA 3878232 c.276G>C synonymous_variant 0.15
rpoA 3878247 c.261G>C synonymous_variant 0.15
rpoA 3878250 c.258C>G synonymous_variant 0.15
rpoA 3878271 c.237T>C synonymous_variant 0.16
rpoA 3878284 p.Glu75Ala missense_variant 0.14
rpoA 3878292 c.216T>C synonymous_variant 0.17
rpoA 3878298 c.210A>G synonymous_variant 0.19
rpoA 3878304 c.204G>C synonymous_variant 0.16
rpoA 3878310 c.198G>C synonymous_variant 0.15
rpoA 3878313 c.195G>C synonymous_variant 0.16
rpoA 3878322 c.186A>G synonymous_variant 0.14
rpoA 3878331 c.177A>G synonymous_variant 0.14
rpoA 3878346 c.162T>C synonymous_variant 0.14
clpC1 4038845 c.1860G>C synonymous_variant 0.16
clpC1 4038860 c.1845G>C synonymous_variant 0.16
clpC1 4038878 c.1827A>G synonymous_variant 0.16
clpC1 4038908 c.1797C>G synonymous_variant 0.17
clpC1 4038914 c.1791G>C synonymous_variant 0.17
clpC1 4038923 c.1780_1782delCTAinsTTG synonymous_variant 0.15
clpC1 4038953 c.1752A>G synonymous_variant 0.15
clpC1 4038956 c.1749T>C synonymous_variant 0.15
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