TB-Profiler result

Run: ERR4817292

Summary

Run ID: ERR4817292

Sample name:

Date: 01-04-2023 14:54:34

Number of reads: 1088483

Percentage reads mapped: 58.57

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 762863 c.-507T>C upstream_gene_variant 0.12
rpoB 762872 p.Met1022Ile missense_variant 0.12
rpoB 762878 p.Ile1024Met missense_variant 0.12
rpoB 762879 p.Met1025Leu missense_variant 0.12
rpoC 762917 c.-453C>G upstream_gene_variant 0.12
rpoC 762923 c.-447C>G upstream_gene_variant 0.12
rpoB 762925 p.Thr1040Ile missense_variant 0.12
rpoC 762929 c.-441G>C upstream_gene_variant 0.12
rpoB 762939 p.Met1045Leu missense_variant 0.11
rpoB 762942 p.Ile1046Val missense_variant 0.11
rpoC 762956 c.-414G>C upstream_gene_variant 0.11
rpoC 762965 c.-405T>C upstream_gene_variant 0.1
rpoC 762980 c.-390T>C upstream_gene_variant 0.11
rpoC 762989 c.-381G>C upstream_gene_variant 0.11
rpoC 762995 c.-375G>C upstream_gene_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775986 p.His832Arg missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 1.0
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 1.0
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 1.0
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 1.0
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.83
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.83
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.88
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.88
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.88
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.88
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.83
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.75
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.6
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.5
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.5
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.5
rrl 1476521 n.2864C>T non_coding_transcript_exon_variant 0.5
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.5
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.5
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.5
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.5
rrl 1476531 n.2874T>C non_coding_transcript_exon_variant 0.5
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.4
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.4
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.4
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.4
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726265 p.Lys25Gln missense_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244305 p.Arg358Leu missense_variant 0.11
embA 4245528 p.Gly766Arg missense_variant 0.13
whiB6 4338203 p.Arg107Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0