TB-Profiler result

Run: ERR9786445
Summary

Run ID: ERR9786445

Sample name:

Date: 02-04-2023 12:25:55

Number of reads: 1963638

Percentage reads mapped: 93.84

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 762131 c.2325C>G synonymous_variant 0.13
rpoB 762317 c.2511A>G synonymous_variant 0.13
rpoB 762338 c.2532T>C synonymous_variant 0.15
rpoB 762347 c.2541T>C synonymous_variant 0.14
rpoC 764489 c.1120C>T synonymous_variant 0.14
rpoC 764521 c.1152T>C synonymous_variant 0.14
rpoC 764527 c.1158C>T synonymous_variant 0.13
rpoC 764536 c.1167G>C synonymous_variant 0.13
rpoC 764539 c.1170C>G synonymous_variant 0.13
rpoC 764554 c.1185C>T synonymous_variant 0.12
rpoC 765700 c.2331T>C synonymous_variant 0.16
rpoC 765734 c.2365T>C synonymous_variant 0.18
rpoC 765739 c.2370G>T synonymous_variant 0.17
rpoC 765751 c.2382C>G synonymous_variant 0.17
rpoC 765753 p.Asp795Ala missense_variant 0.17
rpoC 765772 c.2403C>G synonymous_variant 0.17
rpoC 765784 c.2415C>G synonymous_variant 0.15
rpoC 765787 c.2418C>T synonymous_variant 0.15
rpoC 765793 c.2424C>G synonymous_variant 0.15
rpoC 765796 c.2427C>T synonymous_variant 0.15
rpoC 766861 c.3492G>C synonymous_variant 0.16
rpoC 766864 c.3495G>C synonymous_variant 0.16
rpoC 766876 c.3507C>T synonymous_variant 0.14
rpoC 766882 c.3513C>T synonymous_variant 0.14
rpoC 766900 c.3531T>C synonymous_variant 0.14
rpoC 766945 c.3576A>G synonymous_variant 0.14
rpoC 766963 c.3594T>C synonymous_variant 0.15
rpoC 766972 c.3603G>C synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781742 c.183C>T synonymous_variant 0.13
rpsL 781808 c.249C>T synonymous_variant 0.16
rpsL 781811 c.252C>T synonymous_variant 0.16
rpsL 781838 c.279G>C synonymous_variant 0.14
rpsL 781841 c.282C>G synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rpsA 1834303 c.762T>C synonymous_variant 0.14
rpsA 1834306 c.765T>C synonymous_variant 0.15
rpsA 1834333 c.792C>T synonymous_variant 0.14
rpsA 1834465 c.924T>C synonymous_variant 0.14
rpsA 1834468 c.927A>G synonymous_variant 0.14
rpsA 1834513 c.972C>G synonymous_variant 0.15
rpsA 1834528 c.987T>C synonymous_variant 0.14
rpsA 1834540 c.999G>C synonymous_variant 0.14
rpsA 1834639 c.1098T>C synonymous_variant 0.14
rpsA 1834654 p.Glu371Asp missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168813 c.1722_1799delAGCGCTAGGTGCGTTCAATCTGCCGACGCTGAGTATTCCGTCGGTGACGGTTCCGCCGATCACGATTCCGGCTGGCAC disruptive_inframe_deletion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065381 p.Arg271Cys missense_variant 1.0
thyA 3074097 c.375C>A synonymous_variant 0.12
thyA 3074102 p.Asp124Asn missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiA 3640382 c.-161G>A upstream_gene_variant 1.0
alr 3840764 c.657G>C synonymous_variant 1.0
rpoA 3877962 c.546G>T synonymous_variant 0.13
rpoA 3878271 c.237T>C synonymous_variant 0.14
rpoA 3878284 p.Glu75Ala missense_variant 0.15
rpoA 3878292 c.216T>C synonymous_variant 0.15
rpoA 3878298 c.210A>G synonymous_variant 0.15
rpoA 3878304 c.204G>C synonymous_variant 0.15
rpoA 3878310 c.198G>C synonymous_variant 0.17
rpoA 3878313 c.195G>C synonymous_variant 0.17
rpoA 3878322 c.186A>G synonymous_variant 0.18
rpoA 3878331 c.177A>G synonymous_variant 0.19
rpoA 3878334 c.174T>C synonymous_variant 0.19
rpoA 3878337 c.171T>C synonymous_variant 0.18
rpoA 3878346 c.162T>C synonymous_variant 0.19
rpoA 3878364 c.144A>C synonymous_variant 0.16
rpoA 3878367 c.141C>G synonymous_variant 0.15
rpoA 3878376 c.132G>C synonymous_variant 0.14
rpoA 3878385 c.123C>G synonymous_variant 0.14
rpoA 3878388 c.120C>G synonymous_variant 0.14
rpoA 3878391 c.117T>C synonymous_variant 0.14
rpoA 3878415 c.93C>T synonymous_variant 0.14
rpoA 3878424 c.84G>C synonymous_variant 0.17
rpoA 3878442 c.66G>C synonymous_variant 0.14
rpoA 3878472 p.Asp12Glu missense_variant 0.14
rpoA 3878496 c.12A>T synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248319 c.1806A>G synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407758 p.Ser149Arg missense_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0
PPE35 2168813 c.1721_1799delNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNC frameshift_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0