TB-Profiler result

Run: ERR4817031
Summary

Run ID: ERR4817031

Sample name:

Date: 01-04-2023 14:45:53

Number of reads: 716814

Percentage reads mapped: 99.54

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
gyrB 5505 p.His89Arg missense_variant 0.15
gyrB 5648 p.Val137Leu missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491448 c.666C>T synonymous_variant 0.12
fgd1 491786 p.Leu335Pro missense_variant 0.11
ccsA 620693 p.Ser268Tyr missense_variant 0.13
ccsA 620745 c.855G>C synonymous_variant 0.12
rpoB 762754 p.Leu983Ser missense_variant 0.12
rpoB 763177 p.Ser1124Leu missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766070 c.2701C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778014 p.Asn156Ser missense_variant 0.22
mmpL5 778219 p.Asp88Asn missense_variant 0.17
mmpL5 778305 p.Ile59Thr missense_variant 1.0
mmpL5 778973 c.-493T>C upstream_gene_variant 0.12
mmpL5 779082 c.-602A>G upstream_gene_variant 0.2
mmpR5 779293 p.Ala102Pro missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801183 c.375C>T synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472482 n.637G>A non_coding_transcript_exon_variant 0.67
inhA 1674550 p.Ser117Pro missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154123 c.1989C>T synonymous_variant 0.15
katG 2156051 p.Pro21Ser missense_variant 0.18
PPE35 2167916 c.2696delT frameshift_variant 0.15
PPE35 2169447 p.Phe389Ser missense_variant 0.17
PPE35 2170066 p.Ala183Thr missense_variant 0.18
PPE35 2170451 c.162C>T synonymous_variant 0.11
Rv1979c 2221825 p.Phe447Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726455 p.Asp88Gly missense_variant 0.12
folC 2746192 c.1407C>A synonymous_variant 0.17
Rv2752c 3064616 p.Pro526Ser missense_variant 0.1
thyA 3073693 p.Pro260Leu missense_variant 0.11
ald 3086725 c.-95A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3641846 c.312G>A synonymous_variant 0.11
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878465 p.Thr15Ala missense_variant 0.15
clpC1 4039601 c.1104G>A synonymous_variant 0.13
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245574 p.Leu781His missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4327341 p.Trp45Arg missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408286 c.-84C>T upstream_gene_variant 0.13