TB-Profiler result

Run: SRR13837499
Summary

Run ID: SRR13837499

Sample name:

Date: 03-04-2023 09:11:53

Number of reads: 595208

Percentage reads mapped: 97.24

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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 5149 c.-91G>C upstream_gene_variant 1.0
gyrB 7090 p.Asp617Glu missense_variant 1.0
gyrA 8436 p.Tyr379Asn missense_variant 0.96
fgd1 491701 p.His307Asn missense_variant 1.0
ccsA 619765 c.-126G>A upstream_gene_variant 1.0
rpoB 760805 c.999G>C synonymous_variant 0.17
rpoB 760817 c.1011A>G synonymous_variant 0.25
rpoB 760820 c.1014T>C synonymous_variant 0.25
rpoB 760826 c.1020C>G synonymous_variant 0.29
rpoB 760830 c.1024T>C synonymous_variant 0.29
rpoB 760845 p.Thr347Pro missense_variant 0.2
rpoB 760859 c.1053T>C synonymous_variant 0.18
rpoB 760869 p.Val355Ile missense_variant 0.18
rpoB 760886 c.1080A>G synonymous_variant 0.2
rpoB 760919 c.1113C>G synonymous_variant 0.2
rpoB 760925 c.1119T>C synonymous_variant 0.18
rpoB 760928 c.1122G>C synonymous_variant 0.18
rpoB 760934 c.1128C>T synonymous_variant 0.16
rpoB 760946 c.1140A>G synonymous_variant 0.15
rpoC 764320 c.951C>G synonymous_variant 0.12
rpoC 764381 p.Ser338Thr missense_variant 0.11
rpoC 764431 c.1062G>C synonymous_variant 0.11
rpoC 764434 c.1065A>G synonymous_variant 0.12
rpoC 766043 p.Gln892Glu missense_variant 0.11
mmpL5 775867 p.Arg872Gly missense_variant 0.93
mmpL5 775966 p.Ala839Ser missense_variant 0.17
mmpL5 776710 p.Cys591Ser missense_variant 1.0
mmpL5 777625 p.Gln286Lys missense_variant 1.0
mmpS5 778811 p.Phe32Ser missense_variant 1.0
embR 1416901 c.447G>C synonymous_variant 1.0
rrl 1474466 n.810delA non_coding_transcript_exon_variant 1.0
rrl 1475224 n.1567T>C non_coding_transcript_exon_variant 1.0
rrl 1476589 n.2932G>A non_coding_transcript_exon_variant 0.95
PPE35 2170487 c.126T>A synonymous_variant 1.0
Rv1979c 2221853 p.Phe438Ile missense_variant 1.0
folC 2747314 c.285A>C synonymous_variant 0.14
folC 2747317 c.282C>G synonymous_variant 0.14
folC 2747355 p.Val82Ile missense_variant 0.11
folC 2747407 c.192T>C synonymous_variant 0.12
folC 2747439 p.Met54Leu missense_variant 0.12
folC 2747442 c.157T>C synonymous_variant 0.12
folC 2747443 c.156G>A synonymous_variant 0.12
ribD 2987369 c.531G>A synonymous_variant 1.0
thyA 3073975 p.Arg166Pro missense_variant 1.0
Rv3236c 3612013 c.1104A>T synonymous_variant 1.0
Rv3236c 3612032 p.Met362Arg missense_variant 1.0
rpoA 3877743 c.765T>C synonymous_variant 0.12
rpoA 3877764 c.744C>G synonymous_variant 0.11
rpoA 3877770 c.738A>G synonymous_variant 0.12
rpoA 3877776 c.732T>C synonymous_variant 0.12
rpoA 3877782 c.726T>C synonymous_variant 0.12
rpoA 3877839 c.669G>C synonymous_variant 0.12
rpoA 3877866 c.642G>C synonymous_variant 0.12
rpoA 3877872 c.636C>T synonymous_variant 0.12
rpoA 3877875 c.633T>G synonymous_variant 0.12
rpoA 3877905 c.603A>G synonymous_variant 0.12
embC 4240425 p.Arg188Pro missense_variant 1.0
embC 4240477 c.615C>A synonymous_variant 1.0
embA 4244214 p.Ala328Ser missense_variant 1.0
embA 4244849 c.1617C>G synonymous_variant 1.0
embB 4247198 p.Thr229Pro missense_variant 1.0
embB 4247381 p.Trp290Arg missense_variant 0.9
embB 4248044 p.Lys511Ala missense_variant 0.12
embB 4248052 c.1539G>A synonymous_variant 0.13
embB 4248055 c.1542G>C synonymous_variant 0.12
embB 4248064 c.1551G>C synonymous_variant 0.12
embB 4248070 c.1557T>C synonymous_variant 0.11
embB 4248097 c.1584C>G synonymous_variant 0.11
embB 4248118 c.1605T>C synonymous_variant 0.12
embB 4248127 c.1614G>C synonymous_variant 0.14
embB 4248133 c.1620C>G synonymous_variant 0.14
aftB 4268115 p.Leu241Arg missense_variant 1.0
aftB 4268696 c.141G>A synonymous_variant 1.0
ethA 4326298 c.1176G>A synonymous_variant 1.0
whiB6 4338567 c.-46C>A upstream_gene_variant 1.0