TB-Profiler result

Run: ERR216974
Summary

Run ID: ERR216974

Sample name:

Date: 31-03-2023 15:57:25

Number of reads: 1363902

Percentage reads mapped: 96.08

Strain: lineage4.9.1

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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.97
lineage4.9.1 Euro-American (H37Rv-like) T1 None 0.96
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 8978 c.1677C>T synonymous_variant 0.96
mshA 575407 c.60C>T synonymous_variant 0.12
rpoC 762812 c.-558C>A upstream_gene_variant 0.14
rpoC 765370 c.2001G>T synonymous_variant 0.14
rpoC 767060 p.Arg1231Ser missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777574 p.Phe303Leu missense_variant 0.1
mmpL5 777806 c.675G>T synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304759 p.Pro610Leu missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.12
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.11
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.12
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.11
rrl 1474557 n.900G>A non_coding_transcript_exon_variant 0.11
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.4
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.4
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.5
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.67
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.67
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.67
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.5
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153933 p.Ala727Ser missense_variant 0.29
Rv1979c 2223145 p.Arg7Lys missense_variant 0.87
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
pncA 2289448 c.-207G>A upstream_gene_variant 0.97
kasA 2518741 c.627G>C synonymous_variant 0.17
eis 2714396 p.Glu313* stop_gained 0.12
ahpC 2726338 p.Val49Gly missense_variant 0.35
ahpC 2726341 p.Val50Gly missense_variant 0.34
folC 2747689 c.-91C>A upstream_gene_variant 0.11
Rv2752c 3065698 p.Ile165Thr missense_variant 0.17
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 0.8
fbiD 3339385 p.Asp90Asn missense_variant 1.0
Rv3083 3448527 c.24G>C synonymous_variant 0.15
alr 3840518 c.903G>T synonymous_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.47
embC 4239842 c.-21C>A upstream_gene_variant 0.21
embA 4242904 c.-329C>T upstream_gene_variant 0.11
embA 4243460 c.228C>T synonymous_variant 0.13
embA 4245473 c.2241C>T synonymous_variant 0.12
aftB 4267274 c.1563G>C synonymous_variant 0.15
ubiA 4269602 p.Val78Leu missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0