TB-Profiler result

Run: SRR6896145
Summary

Run ID: SRR6896145

Sample name:

Date: 04-04-2023 17:56:55

Number of reads: 560269

Percentage reads mapped: 99.71

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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 6140 p.Val301Leu missense_variant 1.0
gyrB 6797 p.Gly520Ser 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
ccsA 620272 p.Val128Leu missense_variant 0.1
ccsA 620748 c.858T>G synonymous_variant 0.29
rpoB 759615 c.-192A>C upstream_gene_variant 0.22
rpoB 759620 c.-187A>C upstream_gene_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779183 p.Gly65Val missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781676 c.117C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473949 n.292C>A non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518151 p.Ser13Gly missense_variant 0.11
kasA 2519140 c.1026G>C synonymous_variant 0.15
kasA 2519143 c.1029G>C synonymous_variant 0.17
folC 2746487 p.Asp371Gly missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086639 c.-181A>G upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086790 c.-30C>T upstream_gene_variant 0.12
ald 3086983 p.Ala55Gly missense_variant 0.11
ald 3086987 p.Gln56His missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040547 p.Gly53Glu missense_variant 0.11
embC 4240732 c.870C>T synonymous_variant 1.0
embC 4241223 p.Gly454Val missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245386 c.2154C>A synonymous_variant 0.12
ubiA 4269073 p.Pro254Leu missense_variant 0.13
ethA 4327247 p.Ala76Val missense_variant 0.11
whiB6 4338593 c.-73delT upstream_gene_variant 1.0
whiB6 4338596 c.-75G>C upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0