TB-Profiler result

Run: ERR4822068
Summary

Run ID: ERR4822068

Sample name:

Date: 01-04-2023 17:36:55

Number of reads: 887689

Percentage reads mapped: 97.61

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

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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
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 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.16
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 1472150 n.305T>G non_coding_transcript_exon_variant 0.25
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.2
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.44
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.5
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.4
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.4
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.4
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.33
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.33
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.4
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.6
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.75
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.75
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.75
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.6
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.4
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.22
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.33
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.22
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.67
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.67
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.67
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.67
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.67
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.67
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.67
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.67
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.67
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.67
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.67
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.29
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.4
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.4
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.4
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.6
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.43
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 0.33
rrl 1476536 n.2879G>C non_coding_transcript_exon_variant 0.33
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.33
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.33
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.25
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.22
rrl 1476580 n.2923G>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.41
PPE35 2170182 p.Trp144Leu missense_variant 0.12
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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244909 c.1677C>T synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0