TB-Profiler result

Run: ERR2229175
Summary

Run ID: ERR2229175

Sample name:

Date: 31-03-2023 16:46:58

Number of reads: 511817

Percentage reads mapped: 99.36

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
ethA 4327113 p.Gln121* stop_gained 0.22 ethionamide
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 9131 p.Gln610His missense_variant 0.22
gyrA 9403 p.Gln701Arg missense_variant 0.14
gyrA 9496 p.Ala732Val missense_variant 0.15
mshA 575457 p.Asn37Ile missense_variant 0.29
ccsA 619956 c.66G>A synonymous_variant 0.29
rpoB 761156 c.1350G>A synonymous_variant 0.22
rpoC 765637 c.2268C>A synonymous_variant 0.25
rpoC 766294 c.2925C>T synonymous_variant 0.14
rpoC 766891 c.3527delT frameshift_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777001 p.His494Asn missense_variant 0.12
mmpL5 777164 c.1317C>T synonymous_variant 0.2
mmpL5 777173 c.1308C>T synonymous_variant 0.18
mmpL5 777176 p.Glu435Asp missense_variant 0.18
mmpR5 778451 c.-539C>A upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303804 p.Val292Met missense_variant 0.29
fbiC 1304891 p.Ile654Thr missense_variant 0.14
Rv1258c 1406310 p.Leu344Gln missense_variant 0.2
embR 1417539 c.-192G>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.13
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.14
rrl 1473553 n.-105G>T upstream_gene_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475838 n.2181T>A non_coding_transcript_exon_variant 0.25
rrl 1476522 n.2865G>A non_coding_transcript_exon_variant 0.25
rpsA 1834879 p.Asp446Glu missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918060 p.Lys41Glu missense_variant 0.25
tlyA 1918456 p.Arg173Ser missense_variant 0.15
ndh 2102875 c.168C>T synonymous_variant 0.22
katG 2154578 p.Gly512Arg missense_variant 0.12
katG 2155182 p.Lys310Asn missense_variant 0.18
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.21
PPE35 2169272 c.1341C>G synonymous_variant 0.22
PPE35 2169278 c.1335T>C synonymous_variant 0.22
PPE35 2169281 c.1332T>G synonymous_variant 0.24
PPE35 2169308 c.1305C>T synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.4
PPE35 2170053 p.Thr187Ser missense_variant 0.44
PPE35 2170400 c.213G>C synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518348 c.234A>T synonymous_variant 0.13
ahpC 2725941 c.-252C>T upstream_gene_variant 0.25
pepQ 2859365 p.Pro352Ser missense_variant 0.22
ribD 2986869 p.Asp11Asn missense_variant 0.15
Rv2752c 3064633 p.Ala520Val missense_variant 0.25
Rv2752c 3065497 p.Arg232Leu missense_variant 0.2
thyA 3073815 p.Gln219His missense_variant 0.17
thyA 3074325 c.147A>G synonymous_variant 0.22
fbiD 3339136 p.Asp7His missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840211 p.Glu404Lys missense_variant 0.2
clpC1 4038590 c.2114delT frameshift_variant 0.2
clpC1 4039526 c.1179G>C synonymous_variant 0.2
clpC1 4039530 p.Asp392Ala missense_variant 0.2
clpC1 4040144 c.561G>C synonymous_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.4
embB 4246556 p.Ala15Pro missense_variant 0.4
embB 4248115 c.1602C>T synonymous_variant 0.14
embB 4249462 c.2949G>T synonymous_variant 0.22
aftB 4269213 c.-377C>A upstream_gene_variant 0.29
ubiA 4269239 p.Ala199Thr missense_variant 0.33
ethA 4327590 c.-117G>T upstream_gene_variant 0.12
ethA 4327774 c.-301G>A upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0