TB-Profiler result

Run: ERR2514233
Summary

Run ID: ERR2514233

Sample name:

Date: 31-03-2023 20:12:23

Number of reads: 952980

Percentage reads mapped: 97.57

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
gyrB 5869 p.Asp210Glu missense_variant 0.11
gyrA 6922 c.-380G>T upstream_gene_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8688 p.Ala463Thr missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9665 c.2364A>G synonymous_variant 0.1
fgd1 491602 p.Ala274Thr missense_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620282 p.Arg131His missense_variant 0.15
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760190 p.Phe128Leu missense_variant 0.12
rpoB 760430 c.624T>C synonymous_variant 0.12
rpoB 762171 p.Glu789* stop_gained 0.2
rpoB 762276 p.Arg824Ser missense_variant 0.18
rpoB 762396 p.Arg864Ser missense_variant 0.2
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763783 c.414G>T synonymous_variant 0.12
rpoC 765926 p.Thr853Ala missense_variant 0.12
rpoC 766111 c.2742G>A synonymous_variant 0.13
rpoC 766582 c.3213C>A synonymous_variant 1.0
rpoC 767282 p.Val1305Phe missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775965 p.Ala839Val missense_variant 0.15
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776957 p.Gln508His missense_variant 0.12
mmpL5 777545 c.936C>T synonymous_variant 0.11
mmpR5 778427 c.-563G>A upstream_gene_variant 0.18
mmpS5 778526 p.Thr127Ile missense_variant 0.17
mmpL5 778609 c.-129G>A upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781846 p.Lys96Arg missense_variant 0.13
fbiC 1302805 c.-126C>T upstream_gene_variant 0.14
fbiC 1303018 p.Leu30Met missense_variant 0.14
fbiC 1303940 p.Leu337Gln missense_variant 0.12
Rv1258c 1406727 p.Pro205His missense_variant 0.18
Rv1258c 1407271 p.Gly24Cys missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.25
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.29
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.29
rrs 1473162 n.1317C>A non_coding_transcript_exon_variant 0.4
inhA 1673816 c.-386G>A upstream_gene_variant 0.29
fabG1 1674115 p.Ser226Thr missense_variant 0.11
inhA 1674609 c.408G>T synonymous_variant 0.18
inhA 1674653 p.Pro151Gln missense_variant 0.15
inhA 1674863 p.Gly221Val missense_variant 0.15
rpsA 1833422 c.-120G>A upstream_gene_variant 0.12
rpsA 1833829 c.288A>G synonymous_variant 0.11
rpsA 1833838 c.297G>T synonymous_variant 0.12
rpsA 1833841 c.300C>G synonymous_variant 0.12
rpsA 1833847 c.306C>G synonymous_variant 0.12
rpsA 1833856 c.315A>G synonymous_variant 0.13
rpsA 1833862 c.321G>T synonymous_variant 0.11
rpsA 1833894 p.Ala118Glu missense_variant 0.11
rpsA 1833928 c.387G>C synonymous_variant 0.14
rpsA 1834119 p.Gln193Arg missense_variant 0.12
rpsA 1834597 p.Asp352Glu missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102235 p.Glu270* stop_gained 0.14
ndh 2102486 p.Ala186Val missense_variant 0.29
ndh 2102924 p.Ile40Thr missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155880 p.Arg78Trp missense_variant 0.13
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222272 p.Ala298Asp missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715018 c.315C>T synonymous_variant 0.2
ahpC 2726043 c.-150C>T upstream_gene_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.2
folC 2747094 p.Asp169Asn missense_variant 0.15
pepQ 2859330 c.1089C>T synonymous_variant 0.14
pepQ 2859467 p.Ala318Thr missense_variant 0.12
ribD 2986927 p.Gln30Arg missense_variant 0.13
ribD 2987239 p.Thr134Ile missense_variant 0.2
Rv2752c 3064640 c.1552T>C synonymous_variant 0.15
thyX 3067696 p.Gly84Arg missense_variant 0.18
thyX 3067845 p.Ala34Val missense_variant 0.17
thyA 3073965 p.Asp169Glu missense_variant 0.15
ald 3086694 c.-126C>A upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449001 c.498G>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475111 p.Gly369Arg missense_variant 0.18
Rv3236c 3612362 p.Thr252Ile missense_variant 0.2
Rv3236c 3612807 p.Gly104Ser missense_variant 0.18
fbiB 3642686 p.Leu384Phe missense_variant 0.11
alr 3841473 c.-53G>A upstream_gene_variant 1.0
clpC1 4039629 p.Leu359His missense_variant 0.12
clpC1 4039919 c.786C>A synonymous_variant 0.11
embC 4240238 p.Ala126Thr missense_variant 0.2
embC 4240634 p.Arg258Trp missense_variant 0.2
embC 4240648 c.786C>T synonymous_variant 0.25
embC 4240744 c.882C>T synonymous_variant 0.15
embC 4240913 p.Met351Val missense_variant 0.17
embC 4240962 c.1104delG frameshift_variant 0.15
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242128 c.2266C>T synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243619 c.387C>T synonymous_variant 0.17
embA 4243888 p.Val219Gly missense_variant 0.25
embA 4244119 p.Tyr296Phe missense_variant 0.14
embA 4245145 p.Gln638Leu missense_variant 0.22
embA 4245772 p.Asn847Thr missense_variant 0.14
embB 4247463 p.Ser317Phe missense_variant 0.13
embB 4247719 c.1206G>A synonymous_variant 0.14
embB 4248081 p.Leu523Pro missense_variant 0.11
embB 4248414 p.Phe634Ser missense_variant 0.2
embB 4248437 p.Thr642Ala missense_variant 0.18
embB 4249665 p.Thr1051Asn missense_variant 0.22
aftB 4267127 c.1710G>A synonymous_variant 0.2
ubiA 4269329 c.504delC frameshift_variant 0.13
ethA 4326497 p.Arg326Gln missense_variant 0.18
ethR 4327273 c.-276A>G upstream_gene_variant 0.11
ethR 4327642 p.Thr32Pro missense_variant 0.25
ethA 4327656 c.-183A>G upstream_gene_variant 0.14
ethA 4327842 c.-369G>A upstream_gene_variant 0.13
whiB6 4338426 c.96C>A synonymous_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0