TB-Profiler result

Run: SRR4034228
Summary

Run ID: SRR4034228

Sample name:

Date: 04-04-2023 06:39:02

Number of reads: 493614

Percentage reads mapped: 99.61

Strain: lineage4.3.2.1

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 0.99
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 491699 c.919dupC frameshift_variant 0.4
rpoB 759854 p.Ser16Arg missense_variant 0.15
rpoC 764931 p.Ala521Asp missense_variant 0.25
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765770 p.Thr801Ala missense_variant 0.29
rpoC 766128 p.Ala920Val missense_variant 0.14
rpoC 767265 p.Ala1299Val missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778660 c.-180C>T upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801338 p.Val177Asp missense_variant 0.14
rplC 801391 p.Lys195Glu missense_variant 0.25
fbiC 1303147 p.Ala73Ser missense_variant 0.2
embR 1416368 p.Arg327His missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471725 n.-121C>A upstream_gene_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1473496 n.-162G>C upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154239 p.Thr625Ala missense_variant 0.18
Rv1979c 2222315 p.Ala284Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289368 c.-128dupC upstream_gene_variant 0.14
folC 2746246 c.1353C>T synonymous_variant 0.22
pepQ 2860420 c.-2T>C upstream_gene_variant 0.2
Rv2752c 3067071 c.-880G>T upstream_gene_variant 0.17
thyX 3067463 c.483C>T synonymous_variant 0.4
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086750 c.-70A>G upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449968 p.Ala489Thr missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474064 p.Ala20Thr missense_variant 0.2
rpoA 3877502 p.Tyr336His missense_variant 0.25
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040667 p.Val13Ala missense_variant 0.13
embC 4240693 c.831T>C synonymous_variant 1.0
embC 4241156 p.Gly432Ser missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethR 4326679 c.-870C>T upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0