TB-Profiler result

Run: ERR4817488
Summary

Run ID: ERR4817488

Sample name:

Date: 01-04-2023 15:01:09

Number of reads: 1604033

Percentage reads mapped: 95.84

Strain: lineage4.3.4.2.1

Drug-resistance: Other

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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
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.38 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.38 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.12 kanamycin, capreomycin, aminoglycosides, amikacin
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 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472076 n.231G>A non_coding_transcript_exon_variant 0.12
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.16
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.16
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.15
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.17
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.27
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.43
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.33
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.29
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.29
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.6
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.29
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.43
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.29
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.4
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.29
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.4
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.33
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.29
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.29
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.25
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.25
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.38
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.38
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.38
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.33
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.33
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.33
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.5
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.29
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.19
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.21
rrs 1473262 n.1417T>C non_coding_transcript_exon_variant 0.12
rrs 1473264 n.1419A>G non_coding_transcript_exon_variant 0.12
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.22
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.2
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.12
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.11
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.12
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.14
rrl 1473677 n.20C>T non_coding_transcript_exon_variant 0.18
rrl 1473695 n.39_40delTC non_coding_transcript_exon_variant 0.14
rrl 1473700 n.43G>C non_coding_transcript_exon_variant 0.14
rrl 1473702 n.45_46insGA non_coding_transcript_exon_variant 0.18
rrl 1473717 n.60G>T non_coding_transcript_exon_variant 0.15
rrl 1473718 n.61G>T non_coding_transcript_exon_variant 0.15
rrl 1473744 n.87T>C non_coding_transcript_exon_variant 0.17
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.17
rrl 1473748 n.91A>G non_coding_transcript_exon_variant 0.17
rrl 1473751 n.94C>A non_coding_transcript_exon_variant 0.17
rrl 1473753 n.96A>G non_coding_transcript_exon_variant 0.17
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.17
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.17
rrl 1473782 n.125A>G non_coding_transcript_exon_variant 0.15
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.25
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.22
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.22
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746731 p.Tyr290His missense_variant 0.1
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0