TB-Profiler result

Run: ERR4407449
Summary

Run ID: ERR4407449

Sample name:

Date: 01-04-2023 05:44:34

Number of reads: 433752

Percentage reads mapped: 99.57

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
ccsA 620253 c.363G>A synonymous_variant 0.11
rpoB 761152 p.Leu449Gln missense_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474164 n.507C>A non_coding_transcript_exon_variant 0.11
rrl 1474715 n.1061delA non_coding_transcript_exon_variant 0.11
fabG1 1673668 p.Glu77Lys missense_variant 0.17
rpsA 1833481 c.-61T>C upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102430 c.611_612delTC frameshift_variant 0.12
ndh 2102482 c.561A>T synonymous_variant 0.13
ndh 2102538 p.Lys169Gln missense_variant 0.12
katG 2156348 c.-237A>G upstream_gene_variant 0.12
PPE35 2168031 p.Thr861Lys missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.27
PPE35 2170053 p.Thr187Ser missense_variant 0.27
Rv1979c 2222868 c.297C>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289412 c.-171C>T upstream_gene_variant 0.14
ribD 2986963 p.Arg42Leu missense_variant 0.12
Rv2752c 3065726 p.Ile156Leu missense_variant 0.11
fprA 3474098 p.Asp31Gly missense_variant 0.17
Rv3236c 3612835 c.282T>G synonymous_variant 0.29
alr 3841272 p.Arg50Gln missense_variant 0.12
clpC1 4039480 c.1225C>A synonymous_variant 0.11
embC 4240409 p.Pro183Ser missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.17
embA 4245532 p.Ile767Asn missense_variant 0.12
embA 4246185 p.Ala985Ser missense_variant 0.12
ubiA 4269368 p.Ala156Thr missense_variant 0.18
ubiA 4269817 p.Val6Glu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0