TB-Profiler result

Run: ERR2229324
Summary

Run ID: ERR2229324

Sample name:

Date: 31-03-2023 17:00:50

Number of reads: 867844

Percentage reads mapped: 98.85

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
ald 3087278 c.464delG frameshift_variant 0.2 cycloserine
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
fgd1 491025 c.243C>T synonymous_variant 0.18
mshA 575668 c.321G>T synonymous_variant 0.12
ccsA 619787 c.-103delG upstream_gene_variant 0.18
rpoB 760570 p.Thr255Met missense_variant 0.12
rpoB 760926 p.Thr374Ala missense_variant 0.11
rpoB 761539 p.Arg578Leu missense_variant 0.14
rpoB 762181 p.Asp792Val missense_variant 0.15
rpoC 762485 c.-885G>T upstream_gene_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777121 p.His454Asp missense_variant 0.11
mmpL5 777128 c.1353A>G synonymous_variant 0.13
mmpL5 777136 p.Met449Leu missense_variant 0.17
mmpL5 777142 p.Val447Met missense_variant 0.14
mmpL5 779028 c.-548C>T upstream_gene_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801140 p.Tyr111Cys missense_variant 0.18
fbiC 1303651 c.721C>A synonymous_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304386 p.Arg486Ser missense_variant 0.22
fbiC 1304459 p.Thr510Ile missense_variant 0.5
fbiC 1304690 p.Arg587Gln missense_variant 0.12
fbiC 1305390 c.2460C>A synonymous_variant 0.18
Rv1258c 1407021 p.Ala107Asp missense_variant 0.13
atpE 1461064 p.Ala7Asp missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
fabG1 1673954 p.Ser172Leu missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101822 p.Phe407Leu missense_variant 0.15
ndh 2102604 c.439T>C synonymous_variant 0.17
ndh 2102610 c.433T>C synonymous_variant 0.18
ndh 2102784 p.Gly87Ser missense_variant 0.17
katG 2154633 p.Asn493Lys missense_variant 0.12
PPE35 2167745 p.Thr956Arg missense_variant 0.19
PPE35 2167814 c.2799C>T synonymous_variant 0.31
PPE35 2167965 p.Ala883Gly missense_variant 0.26
PPE35 2167967 c.2646A>C synonymous_variant 0.26
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.66
PPE35 2170053 p.Thr187Ser missense_variant 0.66
PPE35 2170403 c.210C>A synonymous_variant 0.16
PPE35 2170406 c.207A>G synonymous_variant 0.19
Rv1979c 2222559 c.606G>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714954 p.Gly127Cys missense_variant 0.18
folC 2746489 c.1110C>T synonymous_variant 0.17
folC 2746741 p.Tyr286* stop_gained 0.2
folC 2747661 c.-63G>T upstream_gene_variant 0.22
pepQ 2859914 p.Glu169Lys missense_variant 0.17
Rv2752c 3065233 p.Arg320His missense_variant 0.14
thyA 3073736 p.Ile246Val missense_variant 0.2
Rv3083 3448455 c.-49T>A upstream_gene_variant 0.25
Rv3236c 3612206 p.Thr304Asn missense_variant 0.12
fbiB 3641996 c.462C>A synonymous_variant 0.25
alr 3841546 c.-126C>A upstream_gene_variant 0.31
clpC1 4038700 p.Gly669Ser missense_variant 0.13
clpC1 4039022 c.1683A>G synonymous_variant 0.12
clpC1 4039169 p.Glu512Asp missense_variant 0.13
clpC1 4039645 p.His354Asp missense_variant 0.14
clpC1 4039730 c.975C>G synonymous_variant 0.13
clpC1 4040144 c.561G>C synonymous_variant 0.36
embC 4240730 p.Asn290* stop_gained 0.17
embC 4240792 p.Met310Ile missense_variant 0.13
embC 4241373 p.Arg504His missense_variant 0.25
embC 4241773 c.1911C>A synonymous_variant 0.29
embC 4242115 c.2253G>T synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243922 c.690C>A synonymous_variant 0.18
embA 4244324 c.1092T>C synonymous_variant 0.18
embA 4244335 p.Phe368Ser missense_variant 0.13
embA 4246314 p.Gly1028Cys missense_variant 0.17
embB 4246548 p.Pro12Gln missense_variant 0.6
embB 4246555 c.42G>C synonymous_variant 0.69
embB 4246556 p.Ala15Pro missense_variant 0.69
embB 4246563 p.Leu17Trp missense_variant 0.57
embB 4246567 c.54G>T synonymous_variant 0.43
embB 4246971 p.Thr153Asn missense_variant 0.13
embB 4247024 p.Pro171Ala missense_variant 0.2
embB 4247958 p.Met482Lys missense_variant 0.33
embB 4248501 p.Ile663Thr missense_variant 0.11
embB 4249595 p.Trp1028Arg missense_variant 0.15
embB 4249663 c.3150C>T synonymous_variant 0.17
embB 4249676 p.Arg1055Ser missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0