TB-Profiler result

Run: ERR4815828
Summary

Run ID: ERR4815828

Sample name:

Date: 01-04-2023 14:05:13

Number of reads: 53648

Percentage reads mapped: 92.67

Strain: lineage4.9

Drug-resistance: Other

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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 0.98
La1.2.BCG M.bovis BCG None 0.22
lineage4.9 Euro-American (H37Rv-like) T1 None 0.93
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8624 c.1323G>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 1.0
gyrA 8835 p.Ala512Ser missense_variant 0.4
gyrA 9143 c.1842T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763575 p.Arg69Pro missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
embR 1416932 p.Ser139Leu missense_variant 0.67
rrl 1475275 n.1619delT non_coding_transcript_exon_variant 0.67
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 1.0
ndh 2102106 p.Gly313Arg missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156465 c.-354C>T upstream_gene_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
folC 2747167 p.Lys144Asn missense_variant 0.29
thyA 3073979 p.Gln165Lys missense_variant 0.4
ald 3086728 c.-92C>T upstream_gene_variant 1.0
Rv3083 3448745 p.Ile81Ser missense_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
clpC1 4038708 p.Ser666Phe missense_variant 0.5
embC 4242029 c.2167C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269689 p.Val49Ile missense_variant 1.0
ethR 4327441 c.-108G>A upstream_gene_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0