TB-Profiler result

Run: ERR987734
Summary

Run ID: ERR987734

Sample name:

Date: 02-04-2023 13:22:18

Number of reads: 1633121

Percentage reads mapped: 92.77

Strain: lineage4.3.4.2

Drug-resistance: HR-TB

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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
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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
rpoB 762101 c.2295C>T synonymous_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 1472338 n.493A>C non_coding_transcript_exon_variant 0.11
rrs 1472339 n.494C>A non_coding_transcript_exon_variant 0.16
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.18
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.2
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.2
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.17
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.15
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472607 n.762G>C non_coding_transcript_exon_variant 0.15
rrs 1472608 n.763T>A non_coding_transcript_exon_variant 0.15
rrs 1472615 n.770C>T non_coding_transcript_exon_variant 0.14
rrs 1472620 n.775A>G non_coding_transcript_exon_variant 0.14
rrs 1472634 n.789T>C non_coding_transcript_exon_variant 0.14
rrs 1472639 n.794G>A non_coding_transcript_exon_variant 0.14
rrs 1472643 n.798A>T non_coding_transcript_exon_variant 0.12
rrs 1472644 n.799C>G non_coding_transcript_exon_variant 0.13
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.12
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.21
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.53
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.53
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.42
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.41
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.33
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.26
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.16
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.11
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.15
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.15
rrl 1474187 n.530T>C non_coding_transcript_exon_variant 0.15
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.15
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.15
rrl 1474249 n.592G>A non_coding_transcript_exon_variant 0.14
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.12
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.12
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.35
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.38
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.44
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.44
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.36
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.24
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.23
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.19
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.2
rrl 1476246 n.2589G>A non_coding_transcript_exon_variant 0.19
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.18
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.21
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.21
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.17
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.16
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.16
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.47
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.48
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.53
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.55
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.55
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.54
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.54
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.47
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.45
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.55
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.56
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.52
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.53
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.48
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.47
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.25
rrl 1476513 n.2856G>A non_coding_transcript_exon_variant 0.22
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476545 n.2888C>T non_coding_transcript_exon_variant 0.13
rrl 1476565 n.2908G>A non_coding_transcript_exon_variant 0.13
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.13
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.13
rrl 1476577 n.2920T>A non_coding_transcript_exon_variant 0.11
rrl 1476578 n.2921C>A non_coding_transcript_exon_variant 0.11
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.11
rrl 1476592 n.2935G>A non_coding_transcript_exon_variant 0.1
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.17
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
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328019 c.-546G>A upstream_gene_variant 1.0
whiB6 4338593 c.-73delT upstream_gene_variant 1.0
whiB6 4338596 c.-75G>C upstream_gene_variant 1.0
gid 4407980 p.Pro75Ala missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0