TB-Profiler result

Run: ERR4814403

Summary

Run ID: ERR4814403

Sample name:

Date: 01-04-2023 13:16:38

Number of reads: 1075849

Percentage reads mapped: 99.64

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 0.99
lineage4.4.1.1 Euro-American S;Orphans 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 6847 c.-455C>T upstream_gene_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.96
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576423 p.Ala359Val missense_variant 0.11
ccsA 619999 p.Ala37Thr missense_variant 0.18
ccsA 620150 p.Gly87Val missense_variant 0.22
ccsA 620182 p.Arg98Cys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303894 c.966delG frameshift_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917784 c.-156C>A upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168853 p.Pro587Leu missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170426 p.Val63Leu missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518151 p.Ser13Arg missense_variant 0.14
ahpC 2726338 p.Val49Gly missense_variant 0.25
folC 2747476 c.123C>T synonymous_variant 0.13
pepQ 2859965 p.Ala152Ser missense_variant 0.17
pepQ 2860252 p.Thr56Ile missense_variant 0.17
Rv2752c 3066168 c.23delC frameshift_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449240 p.Arg246Leu missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475257 c.1251G>T synonymous_variant 0.14
Rv3236c 3612237 p.Ala294Ser missense_variant 0.11
Rv3236c 3612557 p.Val187Gly missense_variant 0.16
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiA 3641528 p.Val329Ala missense_variant 0.12
fbiB 3642005 c.471C>T synonymous_variant 0.14
rpoA 3878649 c.-142T>C upstream_gene_variant 0.25
clpC1 4039489 p.Ala406Ser missense_variant 0.12
clpC1 4040522 c.183T>C synonymous_variant 1.0
embC 4240596 p.Leu245Pro missense_variant 0.12
embC 4241440 c.1578C>T synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243473 p.Thr81Pro missense_variant 0.1
embA 4243554 p.Arg108Cys missense_variant 0.11
embA 4243960 p.Arg243Gln missense_variant 0.14
embA 4244472 p.Val414Leu missense_variant 0.15
embA 4244837 c.1605G>A synonymous_variant 0.21
embB 4245644 c.-870C>T upstream_gene_variant 0.11
embA 4245931 p.Gly900Asp missense_variant 0.12
embB 4249651 c.3138C>T synonymous_variant 0.12
embB 4249698 p.Gly1062Asp missense_variant 0.29
aftB 4268097 p.Gly247Asp missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0