TB-Profiler result

Run: ERR9891997
Summary

Run ID: ERR9891997

Sample name:

Date: 02-04-2023 13:26:53

Number of reads: 550677

Percentage reads mapped: 98.7

Strain: lineage6.3.1

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
lineage6 West-Africa 2 AFRI_1 RD702 1.0
lineage6.3 West-Africa 2 AFRI_1 RD702 1.0
lineage6.3.1 West-Africa 2 AFRI_1 RD702 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 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9113 c.1812C>A synonymous_variant 0.12
gyrA 9116 p.Glu605Asp missense_variant 0.12
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9232 p.Arg644Leu missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9581 c.2280C>T synonymous_variant 0.29
gyrA 9591 p.Gly764Arg missense_variant 1.0
fgd1 491128 p.Thr116Ser missense_variant 0.2
fgd1 491433 c.651C>T synonymous_variant 0.22
fgd1 491668 p.Lys296Glu missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575249 c.-99G>T upstream_gene_variant 0.2
mshA 576408 p.Ser354Leu missense_variant 0.5
mshA 576462 p.Ala372Glu missense_variant 0.25
mshA 576615 p.Arg423Leu missense_variant 0.25
ccsA 620006 p.Val39Gly missense_variant 0.5
ccsA 620550 c.660C>A synonymous_variant 0.22
rpoB 759991 p.Pro62Arg missense_variant 0.1
rpoB 760969 p.Ser388Leu missense_variant 1.0
rpoB 761654 p.Glu616Asp missense_variant 0.18
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoC 762626 c.-744C>G upstream_gene_variant 0.29
rpoB 762751 p.Leu982Gln missense_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763614 p.Val82Glu missense_variant 0.14
rpoC 764332 c.963G>A synonymous_variant 0.25
rpoC 764890 c.1521G>A synonymous_variant 0.12
rpoC 765181 c.1812G>T synonymous_variant 0.25
rpoC 765388 c.2020_2030delAACGAGCTGCT frameshift_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776091 p.Ser797Ile missense_variant 0.13
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776405 c.2073_2075delGCC disruptive_inframe_deletion 0.18
mmpL5 776452 p.Gly677Arg missense_variant 0.17
mmpL5 776546 p.Met645Ile missense_variant 0.17
mmpL5 776617 p.Pro622Thr missense_variant 0.11
mmpL5 776715 p.Lys589Arg missense_variant 0.14
mmpL5 776953 p.Leu510Met missense_variant 0.2
mmpL5 777145 p.Glu446Lys missense_variant 0.2
mmpL5 777201 p.Ala427Asp missense_variant 0.17
mmpR5 779288 p.Phe100Ser missense_variant 0.11
mmpR5 779398 c.412delG frameshift_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801215 p.Gly136Asp missense_variant 0.18
fbiC 1302893 c.-38G>C upstream_gene_variant 0.13
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1303337 p.Ala136Asp missense_variant 0.12
fbiC 1303419 c.489C>A synonymous_variant 0.12
fbiC 1304196 c.1266C>A synonymous_variant 0.14
fbiC 1304907 c.1977C>A synonymous_variant 0.12
fbiC 1305484 p.Ala852Ser missense_variant 0.33
Rv1258c 1406325 p.Arg339Gln missense_variant 0.2
Rv1258c 1406884 p.Ala153Ser missense_variant 0.13
embR 1416786 p.Ser188Gly missense_variant 0.22
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673716 p.Ala93Pro missense_variant 0.25
fabG1 1674107 p.Phe223Tyr missense_variant 0.15
inhA 1674434 p.Val78Ala missense_variant 1.0
inhA 1674713 p.Val171Gly missense_variant 0.12
rpsA 1834526 p.Arg329Ser missense_variant 0.13
rpsA 1834884 p.Gln448Arg missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101777 c.1266C>A synonymous_variant 0.33
ndh 2102299 p.Met248Ile missense_variant 0.33
ndh 2102694 p.Val117Ile missense_variant 1.0
katG 2154619 p.Arg498Leu missense_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155069 p.Ala348Asp missense_variant 0.12
katG 2155451 p.Ala221Ser missense_variant 0.29
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156043 c.69G>T synonymous_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170435 c.178C>A synonymous_variant 0.12
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222852 p.Ala105Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288878 p.Gln122Lys missense_variant 0.14
pncA 2289008 c.234C>A synonymous_variant 0.12
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518370 p.Met86Leu missense_variant 0.17
kasA 2518439 p.Ala109Ser missense_variant 0.17
folC 2746838 p.Ala254Glu missense_variant 0.13
pepQ 2860426 c.-8C>T upstream_gene_variant 0.12
ribD 2986963 p.Arg42Pro missense_variant 0.14
Rv2752c 3065284 p.Ile303Asn missense_variant 0.14
Rv2752c 3066096 c.96G>A synonymous_variant 0.14
thyX 3067331 p.Asp205Glu missense_variant 0.25
thyX 3067757 c.189C>T synonymous_variant 0.2
thyX 3067888 p.Pro20Thr missense_variant 0.2
thyX 3067965 c.-20C>A upstream_gene_variant 0.17
thyA 3074135 p.Ser113Cys missense_variant 0.12
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
ald 3087669 p.Asp284Tyr missense_variant 0.12
ald 3087788 p.Glu323Asp missense_variant 0.11
ald 3087890 c.1071C>A synonymous_variant 0.12
fbiD 3339709 p.Ala198Ser missense_variant 0.4
Rv3083 3448725 c.222G>T synonymous_variant 0.2
Rv3083 3449122 p.Val207Met missense_variant 0.33
Rv3083 3449371 p.Tyr290His missense_variant 0.22
Rv3083 3449454 c.951G>A synonymous_variant 0.2
Rv3083 3449781 c.1278G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475108 p.Ile368Phe missense_variant 0.5
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568597 p.Trp28Leu missense_variant 0.18
whiB7 3568641 c.39A>G synonymous_variant 0.2
whiB7 3568686 c.-7A>G upstream_gene_variant 0.25
Rv3236c 3612015 c.1101delG frameshift_variant 0.25
Rv3236c 3612606 p.Val171Phe missense_variant 0.14
Rv3236c 3612685 c.432C>A synonymous_variant 0.17
Rv3236c 3612813 p.Thr102Ala missense_variant 0.12
Rv3236c 3613153 c.-37G>T upstream_gene_variant 0.11
fbiB 3640875 c.-660C>G upstream_gene_variant 0.12
fbiB 3641178 c.-357G>T upstream_gene_variant 0.18
fbiB 3641858 c.324G>A synonymous_variant 0.22
fbiB 3642125 p.Glu197Asp missense_variant 0.33
fbiB 3642138 p.Ala202Ser missense_variant 0.25
fbiB 3642630 p.Thr366Ser missense_variant 0.12
fbiB 3642637 p.Ala368Gly missense_variant 0.11
fbiB 3642639 c.1107_1111delGCACA frameshift_variant 0.11
fbiB 3642648 p.Met372Val missense_variant 0.11
fbiB 3642651 p.Phe373Asn missense_variant 0.12
fbiB 3642655 p.Thr374Met missense_variant 0.12
fbiB 3642657 c.1124_1125insGTGCT frameshift_variant 0.12
fbiB 3642661 p.Ala376Gly missense_variant 0.12
fbiB 3642668 c.1134A>T synonymous_variant 0.12
alr 3841369 p.Arg18Trp missense_variant 0.12
rpoA 3877696 p.Thr271Ile missense_variant 1.0
rpoA 3877758 c.750G>T synonymous_variant 0.25
rpoA 3878223 p.Met95Ile missense_variant 0.17
rpoA 3878475 p.Glu11Asp missense_variant 0.15
ddn 3986681 c.-163C>A upstream_gene_variant 0.25
clpC1 4038684 p.Ser674Tyr missense_variant 0.14
clpC1 4040834 c.-130G>T upstream_gene_variant 0.12
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240689 p.Leu276Gln missense_variant 0.25
embC 4241843 p.Leu661Ile missense_variant 1.0
embC 4241905 p.Phe681Leu missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244379 p.Pro383Ser missense_variant 1.0
embA 4245561 p.Val777Leu missense_variant 0.33
embB 4246528 c.15G>A synonymous_variant 1.0
embB 4246817 p.Ala102Thr missense_variant 0.22
embB 4246842 p.Asn110Ile missense_variant 0.12
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248902 p.Thr797Ala missense_variant 0.18
aftB 4268477 c.360C>T synonymous_variant 1.0
ubiA 4269068 p.Thr256Ala missense_variant 0.33
ubiA 4269127 p.Trp236Leu missense_variant 0.14
aftB 4269351 c.-515C>T upstream_gene_variant 0.94
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269522 c.-686C>T upstream_gene_variant 0.75
aftB 4269606 c.-770T>C upstream_gene_variant 0.75
ubiA 4269667 p.Ser56Trp missense_variant 0.18
ubiA 4269855 c.-22G>T upstream_gene_variant 0.13
ethA 4326241 p.Asp411Glu missense_variant 1.0
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338478 p.Phe15Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338658 c.-137G>A upstream_gene_variant 0.17
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407973 p.Val77Ala missense_variant 0.14
gid 4408215 c.-13G>T upstream_gene_variant 0.13