TB-Profiler result

Run: ERR4407529
Summary

Run ID: ERR4407529

Sample name:

Date: 01-04-2023 05:48:40

Number of reads: 416870

Percentage reads mapped: 96.35

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 5507 p.Ala90Ser missense_variant 0.11
gyrB 5764 c.525C>G synonymous_variant 1.0
gyrB 6657 p.Ser473Leu missense_variant 0.11
gyrB 6888 p.Arg550Leu missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8903 c.1602T>C synonymous_variant 0.1
rpoB 759620 c.-187A>C upstream_gene_variant 0.29
rpoC 765706 c.2337G>A synonymous_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775860 p.Met874Thr missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.15
Rv1258c 1407208 p.Ser45Thr missense_variant 0.22
Rv1258c 1407213 p.Gln43Leu missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473503 n.-155G>A upstream_gene_variant 0.1
rrl 1473641 n.-17T>A upstream_gene_variant 0.12
rrl 1473707 n.50T>C non_coding_transcript_exon_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474551 n.894G>T non_coding_transcript_exon_variant 0.12
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.25
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.2
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.2
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.19
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.19
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.16
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.12
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.12
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.12
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.12
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.12
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.12
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.12
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.1
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.11
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.11
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.12
rrl 1476595 n.2938C>T non_coding_transcript_exon_variant 0.11
rrl 1476602 n.2945G>A non_coding_transcript_exon_variant 0.11
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.11
inhA 1674425 p.Ala75Val missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918349 p.Arg137Leu missense_variant 0.12
katG 2154207 c.1905C>T synonymous_variant 0.12
katG 2155893 c.219T>A synonymous_variant 0.12
katG 2155956 c.156G>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289746 c.-505T>C upstream_gene_variant 0.15
pncA 2289960 c.-719C>A upstream_gene_variant 0.1
kasA 2519233 c.1119C>T synonymous_variant 0.15
eis 2714437 p.Met299Thr missense_variant 0.15
ahpC 2725940 c.-253A>G upstream_gene_variant 0.1
ahpC 2726338 p.Val49Gly missense_variant 0.19
Rv2752c 3066109 p.Gly28Val missense_variant 0.14
Rv2752c 3066128 p.Gly22Cys missense_variant 0.12
ald 3086827 p.Val3Ala missense_variant 0.12
fprA 3474528 c.522A>G synonymous_variant 0.12
fprA 3474917 p.Ala304Val missense_variant 0.33
fprA 3475249 p.Pro415Ser missense_variant 0.15
Rv3236c 3613104 p.Arg5Gly missense_variant 0.11
fbiA 3640515 c.-27_-26delGG upstream_gene_variant 0.11
fbiA 3641521 p.Ala327Ser missense_variant 0.17
alr 3840764 c.657G>C synonymous_variant 1.0
alr 3841377 p.Thr15Ile missense_variant 0.12
alr 3841433 c.-13G>T upstream_gene_variant 0.11
rpoA 3878511 c.-4C>A upstream_gene_variant 0.5
clpC1 4038365 p.Glu780Asp missense_variant 0.11
clpC1 4039052 c.1653C>T synonymous_variant 0.29
panD 4043890 p.Leu131Arg missense_variant 0.13
embC 4242497 p.Arg879Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242961 c.-272G>A upstream_gene_variant 0.15
embA 4243286 c.54C>A synonymous_variant 0.12
embA 4244118 p.Tyr296Asn missense_variant 0.15
embA 4244187 p.Thr319Ala missense_variant 0.18
embA 4244997 p.Ala589Ser missense_variant 0.33
ethR 4326829 c.-720C>T upstream_gene_variant 0.15
ethR 4327186 c.-363C>T upstream_gene_variant 1.0
whiB6 4338261 c.261G>A synonymous_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