TB-Profiler result

Run: ERR4815966
Summary

Run ID: ERR4815966

Sample name:

Date: 01-04-2023 14:10:05

Number of reads: 4956506

Percentage reads mapped: 99.03

Strain: lineage4.3.4.2

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
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 1472733 n.888G>A non_coding_transcript_exon_variant 0.23 streptomycin
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 6817 c.-485G>A upstream_gene_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 1472068 n.223T>A non_coding_transcript_exon_variant 0.18
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.21
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.23
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.36
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.23
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.23
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.19
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.19
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.33
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.17
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.46
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.43
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.25
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.2
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.4
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.5
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.15
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.17
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.17
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.15
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.2
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.45
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.27
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.42
rrs 1472785 n.940G>T non_coding_transcript_exon_variant 0.17
rrs 1472786 n.941C>G non_coding_transcript_exon_variant 0.22
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.15
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.18
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.27
rrs 1472970 n.1128A>T non_coding_transcript_exon_variant 0.12
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.12
rrs 1472977 n.1133dupT non_coding_transcript_exon_variant 0.12
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.13
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.13
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.14
rrs 1473047 n.1202C>T non_coding_transcript_exon_variant 0.2
rrs 1473048 n.1203T>C non_coding_transcript_exon_variant 0.2
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473062 n.1217T>G non_coding_transcript_exon_variant 0.29
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.25
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.25
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.18
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.27
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.12
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.11
rrs 1473367 n.1522G>T non_coding_transcript_exon_variant 0.15
rrl 1473757 n.100T>C non_coding_transcript_exon_variant 0.12
rrl 1474551 n.894G>T non_coding_transcript_exon_variant 0.15
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.14
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.15
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.15
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.17
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.14
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.17
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.14
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.14
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.15
rrl 1476639 n.2982G>A non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747680 c.-82C>T upstream_gene_variant 0.99
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 0.98
embC 4239763 c.-100C>T upstream_gene_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