TB-Profiler result

Run: ERR2229614
Summary

Run ID: ERR2229614

Sample name:

Date: 31-03-2023 17:21:47

Number of reads: 1219122

Percentage reads mapped: 99.15

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8658 p.Asp453Asn missense_variant 0.12
gyrA 8765 c.1464C>T synonymous_variant 0.13
gyrA 8792 c.1491G>T synonymous_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576582 p.Pro412Leu missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775794 p.Ala896Val missense_variant 0.14
mmpL5 776080 p.Ala801Ser missense_variant 0.13
mmpL5 777119 p.His454Gln missense_variant 0.19
mmpL5 777122 c.1359C>T synonymous_variant 0.18
mmpL5 777128 c.1353A>G synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781445 c.-115G>T upstream_gene_variant 0.13
rpsL 781473 c.-87C>T upstream_gene_variant 0.17
fbiC 1303143 c.213G>A synonymous_variant 0.12
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 1474029 n.372G>A non_coding_transcript_exon_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
rpsA 1834506 p.His322Arg missense_variant 0.12
tlyA 1917888 c.-52C>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169602 c.1011C>A synonymous_variant 0.13
PPE35 2169902 p.Leu237Phe missense_variant 0.3
PPE35 2169910 p.Asn235Tyr missense_variant 0.27
PPE35 2170048 p.Leu189Val missense_variant 0.39
PPE35 2170053 p.Thr187Ser missense_variant 0.41
PPE35 2170392 p.Gly74Ala missense_variant 0.12
PPE35 2170400 c.213G>C synonymous_variant 0.13
Rv1979c 2223022 p.Pro48Leu missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518685 p.Asp191Asn missense_variant 0.12
kasA 2519128 c.1014G>C synonymous_variant 0.17
kasA 2519131 c.1017G>C synonymous_variant 0.17
kasA 2519140 c.1026G>C synonymous_variant 0.15
kasA 2519143 c.1029G>C synonymous_variant 0.18
kasA 2519306 p.Val398Ile missense_variant 0.13
folC 2746716 p.Gly295Ser missense_variant 0.13
Rv2752c 3065334 c.858C>A synonymous_variant 0.22
thyX 3067928 c.18G>A synonymous_variant 0.13
ald 3087568 p.Val250Asp missense_variant 0.13
fbiD 3339451 p.Val112Met missense_variant 0.18
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.2
Rv3236c 3613007 p.Leu37Ser missense_variant 0.15
fbiA 3641081 p.Val180Ala missense_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.47
clpC1 4039829 p.Leu292Ile missense_variant 0.16
clpC1 4040294 p.Gln137His missense_variant 0.12
panD 4044142 p.Val47Ala missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244955 p.Gly575Cys missense_variant 0.18
embB 4246544 p.Thr11Pro missense_variant 0.21
embB 4246548 p.Pro12Gln missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.43
embB 4246556 p.Ala15Pro missense_variant 0.43
embB 4246563 p.Leu17Trp missense_variant 0.4
embB 4246567 c.54G>T synonymous_variant 0.5
aftB 4267831 p.Gly336Cys missense_variant 0.14
ubiA 4269014 p.Pro274Ser missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0