TB-Profiler result

Run: ERR1949999
Summary

Run ID: ERR1949999

Sample name:

Date: 31-03-2023 15:37:00

Number of reads: 668734

Percentage reads mapped: 99.67

Strain: lineage4.8

Drug-resistance: Sensitive

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
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
mshA 576490 c.1143G>C synonymous_variant 0.12
ccsA 619756 c.-135G>T upstream_gene_variant 0.17
ccsA 620325 c.435G>A synonymous_variant 0.12
rpoB 761152 p.Leu449Gln missense_variant 0.21
rpoB 761680 p.Glu625Val missense_variant 0.11
rpoB 762459 p.Asn885Asp missense_variant 0.12
rpoC 765786 p.Gly806Asp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303591 p.Arg221Trp missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304985 c.2055G>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1673523 c.-679G>A upstream_gene_variant 0.12
inhA 1674819 c.618G>T synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154855 c.1257C>T synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168981 c.1632A>T synonymous_variant 0.25
PPE35 2168987 p.Thr542Ser missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289352 c.-111C>T upstream_gene_variant 0.11
folC 2746742 c.856delT frameshift_variant 0.22
folC 2747626 c.-28G>A upstream_gene_variant 0.13
Rv2752c 3065418 c.774A>G synonymous_variant 0.13
thyX 3067718 c.228C>T synonymous_variant 0.11
fbiD 3339589 p.Leu158Val missense_variant 0.13
Rv3083 3448477 c.-27G>T upstream_gene_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3473816 c.-191A>G upstream_gene_variant 0.11
alr 3840212 c.1209C>T synonymous_variant 0.13
rpoA 3878201 p.Gly103Ser missense_variant 0.13
rpoA 3878490 c.18C>G synonymous_variant 0.44
embC 4241661 p.Leu600Arg missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4246548 p.Pro12Gln missense_variant 0.18
embB 4246555 c.42G>C synonymous_variant 0.19
embB 4246556 p.Ala15Pro missense_variant 0.2
embB 4246563 p.Leu17Trp missense_variant 0.14
embB 4246567 c.54G>T synonymous_variant 0.14
embB 4247028 p.Leu172Gln missense_variant 0.2
aftB 4267933 p.Ala302Pro missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0