TB-Profiler result

Run: SRR6855812
Summary

Run ID: SRR6855812

Sample name:

Date: 04-04-2023 17:46:33

Number of reads: 514797

Percentage reads mapped: 99.68

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 0.99
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
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 491293 p.Pro171Ser missense_variant 0.13
ccsA 620526 c.638_639delCG frameshift_variant 0.11
rpoB 759700 c.-107G>A upstream_gene_variant 0.15
rpoB 761862 p.Ala686Thr missense_variant 0.11
rpoB 762978 p.Gly1058Ser missense_variant 0.11
rpoC 766479 p.Ala1037Val missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779095 p.Ala36Thr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303805 p.Val292Ala missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474400 n.743T>A non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101808 c.1234delA frameshift_variant 0.12
ndh 2102913 p.Ala44Thr missense_variant 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746287 p.Asp438Tyr missense_variant 0.13
folC 2746581 p.Glu340Gln missense_variant 0.15
pepQ 2859401 p.Asp340Tyr missense_variant 0.11
Rv2752c 3066204 c.-13G>C upstream_gene_variant 0.1
Rv2752c 3066324 c.-134delA upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449102 c.603delC frameshift_variant 0.12
Rv3083 3449638 c.1139delA frameshift_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568626 c.53delT frameshift_variant 0.17
Rv3236c 3612127 c.990C>T synonymous_variant 0.11
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878486 c.21delC frameshift_variant 0.2
ddn 3987048 p.Asp69Asn missense_variant 0.11
clpC1 4038806 p.Glu633Asp missense_variant 0.13
embC 4241226 p.Pro455Leu missense_variant 0.1
embC 4242264 p.Glu801Gly missense_variant 0.14
embC 4242633 p.Pro924Gln missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244464 p.Ala411Gly missense_variant 0.1
embB 4249536 p.Glu1008Gly missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0