TB-Profiler result

Run: ERR4814754
Summary

Run ID: ERR4814754

Sample name:

Date: 01-04-2023 13:28:21

Number of reads: 1087758

Percentage reads mapped: 35.43

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760475 c.669A>G synonymous_variant 0.11
rpoB 760484 c.678A>G synonymous_variant 0.11
rpoC 764359 c.991_992delGA frameshift_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.73
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.73
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.8
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.8
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.89
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.67
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 1.0
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.29
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.29
rrs 1473291 n.1446G>A non_coding_transcript_exon_variant 0.29
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.38
rrs 1473316 n.1471C>A non_coding_transcript_exon_variant 0.38
rrs 1473318 n.1473G>A non_coding_transcript_exon_variant 0.38
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.38
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.38
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.43
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.43
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.8
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.8
rrl 1476408 n.2751G>T non_coding_transcript_exon_variant 0.67
rrl 1476413 n.2756A>C non_coding_transcript_exon_variant 0.5
rrl 1476414 n.2757T>A non_coding_transcript_exon_variant 0.4
rrl 1476420 n.2763G>A non_coding_transcript_exon_variant 0.4
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>G non_coding_transcript_exon_variant 0.4
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.4
rrl 1476433 n.2776C>T non_coding_transcript_exon_variant 0.33
inhA 1673393 c.-809G>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154679 p.Ala478Val missense_variant 0.15
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0
Rv1979c 2222748 c.417G>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289763 c.-523delT upstream_gene_variant 0.13
folC 2746320 p.Pro427Ala missense_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613016 p.Pro34Leu missense_variant 0.11
ddn 3987011 c.168C>T synonymous_variant 1.0
clpC1 4039728 c.975_976delCG frameshift_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338354 c.168C>T synonymous_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0