TB-Profiler result

Run: ERR9786407
Summary

Run ID: ERR9786407

Sample name:

Date: 02-04-2023 12:23:54

Number of reads: 1313505

Percentage reads mapped: 98.2

Strain: lineage4.8;lineage3

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
lineage3 East-African-Indian CAS RD750 0.41
lineage4 Euro-American LAM;T;S;X;H None 0.56
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.55
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 0.42
gyrA 9304 p.Gly668Asp missense_variant 0.55
fgd1 491742 c.960T>C synonymous_variant 0.42
rpoC 762434 c.-936T>G upstream_gene_variant 0.48
rpoC 763031 c.-339T>C upstream_gene_variant 0.37
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.36
mmpL5 776656 p.Gly609Arg missense_variant 0.58
mmpL5 777205 p.Pro426Ser missense_variant 0.52
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.46
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.39
PPE35 2167926 p.Leu896Ser missense_variant 0.5
PPE35 2169662 c.951T>C synonymous_variant 0.59
PPE35 2169776 c.837C>T synonymous_variant 0.6
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 0.52
ahpC 2726105 c.-88G>A upstream_gene_variant 0.66
ahpC 2726115 c.-78C>T upstream_gene_variant 0.59
ribD 2986852 p.Gly5Asp missense_variant 0.53
thyA 3074440 p.Val11Ala missense_variant 0.46
ald 3086788 c.-32T>C upstream_gene_variant 0.52
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.32
alr 3840764 c.657G>C synonymous_variant 0.63
embC 4242075 p.Arg738Gln missense_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248803 p.Met764Leu missense_variant 0.33
embB 4249254 p.Gly914Glu missense_variant 0.26
whiB6 4338471 p.Arg17Ser missense_variant 0.53
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.51
gid 4407650 p.Asp185Asn missense_variant 0.54