TB-Profiler result

Run: ERR1950055
Summary

Run ID: ERR1950055

Sample name:

Date: 31-03-2023 15:38:41

Number of reads: 876230

Percentage reads mapped: 98.0

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
gyrB 5991 p.Phe251Tyr missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 490955 p.Met58Lys missense_variant 0.21
mshA 576407 p.Ser354Ala missense_variant 0.15
ccsA 619831 c.-60T>G upstream_gene_variant 0.21
rpoB 759691 c.-116A>T upstream_gene_variant 0.29
rpoC 764181 p.Asp271Ala missense_variant 0.25
rpoC 764235 p.Lys289Thr missense_variant 0.23
rpoC 764278 p.Gln303His missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 0.94
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476001 n.2344T>G non_coding_transcript_exon_variant 0.25
inhA 1674944 p.Asp248Val missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103211 c.-169A>C upstream_gene_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169917 c.696T>A synonymous_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518473 p.Glu120Val missense_variant 0.29
kasA 2518695 p.Val194Gly missense_variant 0.23
eis 2714632 p.Lys234Thr missense_variant 0.18
ahpC 2726197 p.Pro2Gln missense_variant 0.21
folC 2746331 p.Glu423Ala missense_variant 0.42
folC 2747373 p.Thr76Pro missense_variant 0.22
pepQ 2859778 p.Val214Gly missense_variant 0.31
thyX 3067383 p.Asn188Thr missense_variant 0.43
ald 3086721 c.-99T>A upstream_gene_variant 0.25
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.67
fprA 3474634 p.Leu210Met missense_variant 0.33
Rv3236c 3612262 c.855A>T synonymous_variant 0.22
Rv3236c 3612965 p.Val51Gly missense_variant 0.18
Rv3236c 3613039 c.78A>T synonymous_variant 0.22
rpoA 3878295 p.Glu71Asp missense_variant 0.25
embC 4239868 c.6T>G synonymous_variant 0.16
embC 4242575 p.Gln905Glu missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244446 p.Leu405Arg missense_variant 0.22
embA 4244508 p.Leu426Val missense_variant 0.31
embB 4247470 c.957T>C synonymous_variant 0.12
aftB 4268619 p.Val73Gly missense_variant 0.25
ethR 4327633 p.Ile29Leu missense_variant 0.36
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0