TB-Profiler result

Run: ERR2515141
Summary

Run ID: ERR2515141

Sample name:

Date: 31-03-2023 20:46:35

Number of reads: 797008

Percentage reads mapped: 99.61

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8351 c.1050C>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576377 p.Asp344Asn missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777245 c.1236G>A synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475253 n.1596T>A non_coding_transcript_exon_variant 0.15
rrl 1475299 n.1642G>T non_coding_transcript_exon_variant 0.17
rrl 1475423 n.1766T>A non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102077 p.Asp322Glu missense_variant 0.13
ndh 2103138 c.-96C>T upstream_gene_variant 0.12
ndh 2103139 c.-97A>T upstream_gene_variant 0.12
katG 2155352 p.Arg254Cys missense_variant 0.12
PPE35 2168485 p.Asn710Asp missense_variant 0.13
PPE35 2168721 p.Ala631Val missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290186 c.-945G>T upstream_gene_variant 0.14
kasA 2518207 p.Ser31Arg missense_variant 0.15
ahpC 2726210 c.18T>C synonymous_variant 1.0
pepQ 2860211 p.Asp70Tyr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339346 c.230_231delCC frameshift_variant 0.11
fbiD 3339429 c.312C>T synonymous_variant 0.18
Rv3083 3449002 c.500_505delAGCACT disruptive_inframe_deletion 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612887 p.Phe77Cys missense_variant 0.25
Rv3236c 3612909 p.Leu70Ile missense_variant 0.13
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642047 c.513G>C synonymous_variant 0.12
fbiB 3642414 p.Pro294Ala missense_variant 0.11
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878234 p.Pro92Ser missense_variant 0.1
embC 4240136 p.Ala92Pro missense_variant 0.11
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4241673 p.Ala604Val missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4267585 p.Thr418Ser missense_variant 0.2
aftB 4267649 c.1188T>C synonymous_variant 0.33
aftB 4268158 p.Phe227Ile missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0