TB-Profiler result

Run: ERR2229515
Summary

Run ID: ERR2229515

Sample name:

Date: 31-03-2023 17:16:30

Number of reads: 1019249

Percentage reads mapped: 99.35

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 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
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
gyrB 6006 p.Gly256Ala missense_variant 0.11
gyrB 6101 p.Glu288Gln missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491443 p.Ser221Ala missense_variant 0.14
mshA 576108 p.Ala254Gly missense_variant 0.36
ccsA 620002 p.Gln38Lys missense_variant 0.18
rpoB 761599 p.Arg598Pro missense_variant 0.11
rpoC 765700 c.2331T>C synonymous_variant 0.11
rpoC 766392 p.Thr1008Ile missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775939 p.Ala848Ser missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474901 n.1246delT non_coding_transcript_exon_variant 0.15
rrl 1475188 n.1531C>A non_coding_transcript_exon_variant 0.14
inhA 1673883 c.-319C>T upstream_gene_variant 0.12
rpsA 1833961 c.420C>G synonymous_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2169939 p.Gly225Ala missense_variant 0.1
PPE35 2169947 c.666T>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.14
PPE35 2170053 p.Thr187Ser missense_variant 0.12
Rv1979c 2222184 p.Trp327Cys missense_variant 0.11
Rv1979c 2222962 p.Ala68Val missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289638 c.-397C>A upstream_gene_variant 0.17
pncA 2289678 c.-437T>C upstream_gene_variant 0.13
pncA 2289805 c.-564C>A upstream_gene_variant 0.18
folC 2746890 p.Gln237Lys missense_variant 0.12
Rv2752c 3065316 c.876C>T synonymous_variant 0.11
thyA 3074118 c.354G>A synonymous_variant 0.2
fbiB 3641352 c.-183C>T upstream_gene_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.21
panD 4044338 c.-57C>T upstream_gene_variant 0.11
embC 4241657 p.Ser599Ala missense_variant 0.25
embC 4241872 c.2010G>A synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.4
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246584 p.Arg24Pro missense_variant 0.4
aftB 4268551 p.Val96Leu missense_variant 0.14
aftB 4269132 c.-296G>T upstream_gene_variant 0.14
ethA 4327517 c.-44A>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408009 p.Val65Ala missense_variant 0.1
gid 4408089 c.114C>G synonymous_variant 0.1
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0