TB-Profiler result

Run: ERR4819424
Summary

Run ID: ERR4819424

Sample name:

Date: 01-04-2023 16:06:10

Number of reads: 1315897

Percentage reads mapped: 98.1

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 0.64 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
rpoC 764530 c.1161C>T synonymous_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 0.96
mmpL5 777119 p.His454Gln missense_variant 0.15
mmpL5 777122 c.1359C>T synonymous_variant 0.15
mmpL5 777128 c.1353A>G synonymous_variant 0.14
mmpR5 779170 p.Ala61Thr missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.4
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.4
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>T non_coding_transcript_exon_variant 0.57
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.57
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.56
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.56
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.6
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.5
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.5
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.5
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.18
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.38
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.38
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.38
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.56
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.5
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.62
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.55
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.56
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.62
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.5
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.4
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.4
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.19
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.19
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.13
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.25
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.24
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.24
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.24
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.24
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.24
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.24
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.24
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.24
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.22
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.13
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.15
rrl 1473749 n.92A>T non_coding_transcript_exon_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474955 n.1298T>C non_coding_transcript_exon_variant 0.4
rrl 1474961 n.1304T>A non_coding_transcript_exon_variant 0.4
rrl 1474962 n.1305T>C non_coding_transcript_exon_variant 0.4
rrl 1474963 n.1306G>A non_coding_transcript_exon_variant 0.4
rrl 1474964 n.1307T>A non_coding_transcript_exon_variant 0.4
rrl 1474970 n.1313G>A non_coding_transcript_exon_variant 0.4
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.29
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.4
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.4
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.4
rrl 1475772 n.2115A>C non_coding_transcript_exon_variant 0.5
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.5
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168822 c.1791G>A synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289890 c.-649C>T upstream_gene_variant 0.11
pncA 2289896 c.-655C>T upstream_gene_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3642234 p.Arg234Trp missense_variant 0.13
rpoA 3878578 c.-71C>A upstream_gene_variant 0.5
clpC1 4039645 p.His354Asp missense_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249364 p.Glu951Gln missense_variant 1.0
aftB 4268762 c.75C>T synonymous_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0