TB-Profiler result

Run: ERR2229729
Summary

Run ID: ERR2229729

Sample name:

Date: 31-03-2023 17:29:14

Number of reads: 948947

Percentage reads mapped: 99.21

Strain: lineage4

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
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
fgd1 491125 p.Ala115Thr missense_variant 0.18
fgd1 491145 c.363C>A synonymous_variant 0.29
mshA 576488 p.Val381His missense_variant 0.25
ccsA 620729 p.His280Arg missense_variant 0.13
ccsA 620834 p.Val315Ala missense_variant 0.13
rpoB 761264 c.1458C>A synonymous_variant 0.15
rpoB 763189 p.Asn1128Ile missense_variant 0.14
rpoC 765679 c.2310C>T synonymous_variant 0.17
rpoC 766531 c.3162G>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775824 p.Leu886Pro missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417064 p.Ala95Asp missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473853 n.196G>C non_coding_transcript_exon_variant 0.12
rrl 1473918 n.261C>A non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.34
rpsA 1834684 c.1143C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918144 p.Lys69Arg missense_variant 0.12
PPE35 2167745 p.Thr956Arg missense_variant 0.2
PPE35 2168047 p.Leu856Val missense_variant 0.17
PPE35 2168051 p.Val854Ile missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.2
PPE35 2169023 c.1590G>C synonymous_variant 0.18
PPE35 2169269 c.1344A>G synonymous_variant 0.18
PPE35 2169272 c.1341C>G synonymous_variant 0.19
PPE35 2169278 c.1335T>C synonymous_variant 0.14
PPE35 2169281 c.1332T>G synonymous_variant 0.14
PPE35 2169902 p.Leu237Phe missense_variant 0.27
PPE35 2169910 p.Asn235Tyr missense_variant 0.21
PPE35 2170048 p.Leu189Val missense_variant 0.41
PPE35 2170053 p.Thr187Ser missense_variant 0.46
PPE35 2170159 p.Ala152Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714590 p.Ala248Val missense_variant 0.12
eis 2714608 p.Arg242Met missense_variant 0.13
eis 2714666 c.666delG frameshift_variant 0.14
thyX 3067584 p.Gly121Val missense_variant 0.2
thyX 3067922 c.24C>A synonymous_variant 0.14
ald 3087178 p.Val120Ala missense_variant 0.11
fbiD 3339364 p.Pro83Ala missense_variant 0.12
fbiD 3339539 p.Ala141Asp missense_variant 0.2
fbiD 3339543 c.426C>T synonymous_variant 0.2
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3475058 c.1055_1056dupCC frameshift_variant 0.12
fprA 3475259 p.Val418Ala missense_variant 0.12
Rv3236c 3612947 p.Phe57Ser missense_variant 0.18
fbiB 3641777 p.Glu81Asp missense_variant 0.17
fbiB 3641828 c.294A>T synonymous_variant 0.14
alr 3841546 c.-126C>A upstream_gene_variant 0.26
alr 3841582 c.-162A>G upstream_gene_variant 0.14
alr 3841584 c.-164C>A upstream_gene_variant 0.13
alr 3841589 c.-170delG upstream_gene_variant 0.15
rpoA 3877846 p.Leu221Pro missense_variant 0.12
clpC1 4039812 p.Ala298Asp missense_variant 0.13
clpC1 4040021 c.684A>C synonymous_variant 0.14
clpC1 4040024 c.681A>G synonymous_variant 0.18
clpC1 4040027 c.678C>G synonymous_variant 0.18
clpC1 4040032 p.Val225Ile missense_variant 0.2
clpC1 4040086 p.Arg207Ser missense_variant 0.2
clpC1 4040144 c.561G>C synonymous_variant 0.14
panD 4044049 p.Leu78* stop_gained 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245777 p.Ala849Ser missense_variant 0.25
embB 4246118 c.-396G>T upstream_gene_variant 0.13
embB 4246548 p.Pro12Gln missense_variant 0.21
embB 4246555 c.42G>C synonymous_variant 0.21
embB 4246556 p.Ala15Pro missense_variant 0.21
aftB 4267099 p.Ala580Thr missense_variant 0.12
ethR 4327559 p.Ser4Tyr missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407657 c.546C>G synonymous_variant 0.11
gid 4408331 c.-129C>A upstream_gene_variant 0.12
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0