TB-Profiler result

Run: ERR2513837
Summary

Run ID: ERR2513837

Sample name:

Date: 31-03-2023 19:56:24

Number of reads: 2322011

Percentage reads mapped: 97.33

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 0.52 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 6442 c.-860C>G 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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_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 1472462 n.617T>G non_coding_transcript_exon_variant 0.14
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.53
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.53
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.59
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.59
rrs 1472564 n.719A>G non_coding_transcript_exon_variant 0.12
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.47
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.3
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.69
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.24
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.52
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.53
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.48
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.39
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.35
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.32
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.35
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.33
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.38
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.32
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.36
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.52
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.55
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.52
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.52
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.33
rrs 1472785 n.940G>T non_coding_transcript_exon_variant 0.1
rrs 1472786 n.941C>G non_coding_transcript_exon_variant 0.1
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.32
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.35
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.46
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.22
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.2
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.13
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.12
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.12
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.14
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.12
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.18
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.22
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.21
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.23
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.28
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.19
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.13
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.16
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.17
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.17
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.17
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.16
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.17
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.13
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.12
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.12
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.12
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.36
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.36
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.4
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.4
rrl 1474275 n.618T>C non_coding_transcript_exon_variant 0.33
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.18
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.35
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.36
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.36
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.47
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.45
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.41
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.41
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.44
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.17
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.13
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.14
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.11
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878567 c.-60C>G upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0