TB-Profiler result

Run: ERR4814551
Summary

Run ID: ERR4814551

Sample name:

Date: 01-04-2023 13:21:39

Number of reads: 2110157

Percentage reads mapped: 97.7

Strain: lineage4.1.2.1

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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 0.85 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.97
fgd1 490622 c.-161G>A upstream_gene_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576372 p.Ala342Val missense_variant 0.1
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761639 c.1833G>A synonymous_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777361 p.Ala374Thr missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.22
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.25
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.25
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.25
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.25
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.29
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.33
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.67
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.78
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.7
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.8
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.82
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.87
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.87
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.87
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.87
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.84
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.11
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.86
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.9
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.9
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.11
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.82
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.76
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.76
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.67
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.67
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.4
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.67
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.67
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.8
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.83
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.83
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.8
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.79
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.3
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.38
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.33
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.4
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.4
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.4
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.4
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.25
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.25
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.2
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.2
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.22
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.22
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.22
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.3
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.33
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.33
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.33
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.38
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.4
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.4
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.5
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.5
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 0.38
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.38
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.38
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.3
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.75
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.75
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.75
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.8
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.8
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.8
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.8
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.8
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.5
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168863 c.1750C>T synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.11
Rv1979c 2223233 c.-69G>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.21
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038254 c.2451G>A synonymous_variant 0.11
embC 4241539 c.1677T>C synonymous_variant 1.0
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