TB-Profiler result

Run: ERR2229566
Summary

Run ID: ERR2229566

Sample name:

Date: 31-03-2023 17:19:05

Number of reads: 740895

Percentage reads mapped: 99.32

Strain: lineage4.8

Drug-resistance: RR-TB

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
rpoB 761143 p.Lys446Thr missense_variant 0.18 rifampicin
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 9252 p.Val651Ile missense_variant 0.12
gyrA 9400 p.Val700Ala missense_variant 0.14
fgd1 490996 p.Thr72Ser missense_variant 0.13
fgd1 491586 p.Met268Ile missense_variant 0.12
mshA 575609 p.Ile88Phe missense_variant 0.14
mshA 576108 p.Ala254Gly missense_variant 0.45
ccsA 620751 p.Trp287Cys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776063 c.2418C>T synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303702 p.Gly258Ser missense_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304496 c.1566T>A synonymous_variant 0.12
fbiC 1305034 p.Leu702Met missense_variant 0.12
fbiC 1305100 p.Asn724Tyr missense_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
rrl 1476046 n.2389G>A non_coding_transcript_exon_variant 0.2
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
inhA 1674362 p.Leu54Pro missense_variant 0.2
inhA 1674816 c.615T>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.14
PPE35 2167760 c.2853G>A synonymous_variant 0.13
PPE35 2167763 p.Ile950Val missense_variant 0.13
PPE35 2168028 p.Pro862His missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169044 c.1569G>C synonymous_variant 0.12
PPE35 2169677 c.936C>G synonymous_variant 0.16
PPE35 2170048 p.Leu189Val missense_variant 0.19
PPE35 2170053 p.Thr187Ser missense_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066118 p.Asn25Ile missense_variant 0.12
fprA 3474144 p.Trp46Cys missense_variant 0.12
fprA 3475179 p.Glu391Asp missense_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.28
rpoA 3877887 c.621G>T synonymous_variant 0.17
ddn 3986831 c.-13T>C upstream_gene_variant 0.17
clpC1 4039730 c.975C>G synonymous_variant 0.13
embA 4242511 c.-722G>C upstream_gene_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243281 p.Ala17Ser missense_variant 0.14
embA 4245466 p.Pro745His missense_variant 0.25
embB 4246584 p.Arg24Pro missense_variant 0.29
embB 4247111 c.599delT frameshift_variant 0.13
embB 4249733 p.Pro1074Ala missense_variant 0.29
aftB 4267094 c.1742delC frameshift_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1407del transcript_ablation 1.0