TB-Profiler result

Run: ERR4815800
Summary

Run ID: ERR4815800

Sample name:

Date: 01-04-2023 14:04:22

Number of reads: 1639561

Percentage reads mapped: 96.09

Strain: lineage4.8

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
lineage4.8 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
gyrB 6363 c.1127delG frameshift_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 762956 c.-414G>T upstream_gene_variant 0.1
rpoC 762983 c.-387C>T upstream_gene_variant 0.11
rpoC 762989 c.-381G>C upstream_gene_variant 0.11
rpoC 762995 c.-375G>C upstream_gene_variant 0.11
rpoB 763016 p.Met1070Ile missense_variant 0.17
rpoC 763432 p.Arg21Ser missense_variant 0.15
rpoC 763569 p.Arg67Pro missense_variant 0.13
rpoC 765262 c.1895delA frameshift_variant 0.12
rpoC 765649 p.Phe760Leu missense_variant 0.11
rpoC 766057 c.2688C>T synonymous_variant 0.18
rpoC 766508 p.Ala1047Ser missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776531 c.1950G>A synonymous_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800863 c.58delA frameshift_variant 0.15
embR 1416222 p.Phe376Leu missense_variant 0.13
embR 1416232 p.Cys372Gly missense_variant 0.13
embR 1416259 c.1089G>C synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471891 n.46C>T non_coding_transcript_exon_variant 0.1
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.4
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.2
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.2
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.55
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.25
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.17
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.56
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 1.0
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 1.0
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 1.0
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 1.0
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 1.0
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 1.0
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.91
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 1.0
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 1.0
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.43
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.57
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.43
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.64
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.64
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.36
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.64
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 1.0
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 1.0
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472901 n.1056T>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.22
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.22
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.25
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.43
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.43
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.4
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.4
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.4
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.4
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.4
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.5
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.4
rrs 1473183 n.1338A>T non_coding_transcript_exon_variant 0.22
rrs 1473226 n.1381C>G non_coding_transcript_exon_variant 0.18
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.5
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.8
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.8
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.8
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 1.0
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.25
rpsA 1834735 c.1194C>T synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168252 c.2361G>A synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290226 c.-985T>C upstream_gene_variant 0.1
kasA 2518216 c.102G>A synonymous_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612318 p.Arg267Cys missense_variant 0.1
Rv3236c 3612529 p.Phe196Leu missense_variant 0.12
fbiA 3641287 c.749delA frameshift_variant 0.1
clpC1 4039731 p.Leu325Asn missense_variant 0.12
clpC1 4039736 c.969C>G synonymous_variant 0.1
clpC1 4040084 c.621C>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267172 c.1665C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448498 c.-5_*1408del transcript_ablation 1.0