TB-Profiler result

Run: SRR6982438
Summary

Run ID: SRR6982438

Sample name:

Date: 04-04-2023 18:37:27

Number of reads: 489670

Percentage reads mapped: 99.54

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 0.99
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575173 c.-175G>T upstream_gene_variant 0.18
ccsA 620830 p.Thr314Ala missense_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776032 p.Gly817Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.64
Rv1258c 1407467 c.-127C>G upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1674023 p.Asp195Gly missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101879 c.1164C>T synonymous_variant 0.14
PPE35 2167830 p.Leu928Pro missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860228 p.Ala64Gly missense_variant 0.12
ribD 2986799 c.-40G>A upstream_gene_variant 0.11
Rv2752c 3065474 p.Ser240Ala missense_variant 0.1
Rv2752c 3065712 c.480C>T synonymous_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449262 p.Lys253Asn missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568425 c.255T>C synonymous_variant 0.15
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3642395 c.861A>G synonymous_variant 0.12
fbiB 3642853 p.Pro440His missense_variant 0.12
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245722 p.Phe830Leu missense_variant 0.14
embB 4246865 p.Val118Ile missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0