TB-Profiler result

Run: SRR6896212
Summary

Run ID: SRR6896212

Sample name:

Date: 04-04-2023 17:58:56

Number of reads: 658644

Percentage reads mapped: 99.76

Strain: lineage4.4.1.1.1

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 1.0
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 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
gyrB 6115 p.Gln292His missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9614 p.Asp771Glu missense_variant 0.12
fgd1 491393 p.Thr204Ile missense_variant 0.1
ccsA 620081 c.193delG frameshift_variant 0.12
rpoB 760225 p.Glu140Gly missense_variant 0.12
rpoB 761397 p.Asp531Tyr missense_variant 0.11
rpoB 762513 p.Asp903Tyr missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777384 p.Lys366Arg missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781743 c.185delA frameshift_variant 0.11
rpsL 781823 c.264G>A synonymous_variant 0.12
fbiC 1303113 p.Ser61Arg missense_variant 0.12
atpE 1460953 c.-92T>A upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471835 n.-11G>T upstream_gene_variant 0.12
rrs 1471930 n.85G>A non_coding_transcript_exon_variant 0.12
rrs 1473053 n.1208T>C non_coding_transcript_exon_variant 0.1
rrl 1476352 n.2695T>A non_coding_transcript_exon_variant 0.17
fabG1 1673948 p.Glu170Gly missense_variant 0.15
rpsA 1834898 p.Ser453Gly missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102166 p.Ser293Pro missense_variant 0.11
ndh 2102174 p.Ala290Val missense_variant 0.1
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155704 c.408C>T synonymous_variant 0.12
katG 2156019 p.Glu31Asp missense_variant 0.11
PPE35 2167915 p.Asn900Asp missense_variant 0.13
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170409 c.204G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289210 p.Asn11Ser missense_variant 0.11
pncA 2289526 c.-285T>C upstream_gene_variant 0.12
ahpC 2726020 c.-173T>A upstream_gene_variant 0.15
folC 2746533 p.Pro356Ser missense_variant 0.2
pepQ 2859367 c.1051delA frameshift_variant 0.13
pepQ 2860280 p.Ala47Pro missense_variant 0.17
ribD 2987064 p.Glu76* stop_gained 0.11
ribD 2987294 c.456G>A synonymous_variant 0.1
Rv2752c 3064831 p.Ala454Asp missense_variant 0.11
Rv2752c 3066368 c.-177C>A upstream_gene_variant 0.11
thyX 3067518 p.Tyr143Phe missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087776 c.957G>A synonymous_variant 0.11
fbiD 3339345 c.232_233insGTGCATGGGGCACGGCCCTGGCTAAGGTGCCG frameshift_variant 0.14
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475062 c.1056C>A synonymous_variant 0.11
Rv3236c 3612167 p.Gly317Val missense_variant 0.11
Rv3236c 3612287 p.Gly277Val missense_variant 0.11
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3641106 c.-429C>T upstream_gene_variant 0.1
alr 3840635 c.785delC frameshift_variant 0.12
ddn 3986726 c.-118G>A upstream_gene_variant 0.1
ddn 3986812 c.-32T>C upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243517 c.285C>T synonymous_variant 0.17
embA 4244300 c.1068C>A synonymous_variant 0.25
embA 4244966 c.1734C>A synonymous_variant 0.17
embB 4247059 c.546C>G synonymous_variant 0.1
embB 4247060 p.Pro183Ala missense_variant 0.1
embB 4247066 p.Ile185Val missense_variant 0.11
embB 4248726 p.Ser738Phe missense_variant 0.11
embB 4249449 p.Gly979Val missense_variant 0.12
aftB 4267110 p.Asn576Ile missense_variant 0.11
aftB 4267315 p.Ile508Val missense_variant 0.18
aftB 4267649 c.1188T>C synonymous_variant 1.0
aftB 4267982 c.855C>A synonymous_variant 0.1
ubiA 4269055 c.778delC frameshift_variant 0.12
aftB 4269519 c.-683G>C upstream_gene_variant 0.1
ethA 4326258 c.1216T>C synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0