TB-Profiler result

Run: ERR9787061
Summary

Run ID: ERR9787061

Sample name:

Date: 02-04-2023 12:58:35

Number of reads: 1545530

Percentage reads mapped: 86.63

Strain: lineage6.2.3

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 0.98
lineage6.2 West-Africa 2 AFRI_1 RD702 0.97
lineage6.2.3 West-Africa 2 AFRI_1 RD702 0.99
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 5072 c.-168G>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 0.96
gyrB 7121 p.Pro628Ser missense_variant 0.94
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7480 p.Phe60Tyr missense_variant 0.14
gyrA 7547 c.246C>T synonymous_variant 0.16
gyrA 7562 c.261C>T synonymous_variant 0.15
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7625 c.324G>C synonymous_variant 0.15
gyrA 7631 c.330G>C synonymous_variant 0.15
gyrA 7637 c.336C>G synonymous_variant 0.15
gyrA 8493 p.Leu398Phe missense_variant 0.95
gyrA 8672 c.1371A>G synonymous_variant 0.16
gyrA 8678 c.1377G>A synonymous_variant 0.15
gyrA 8693 c.1392T>C synonymous_variant 0.16
gyrA 8711 c.1410A>C synonymous_variant 0.15
gyrA 8714 c.1413A>G synonymous_variant 0.15
gyrA 8740 p.Arg480His missense_variant 0.13
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491668 p.Lys296Glu missense_variant 0.93
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760340 c.534G>T synonymous_variant 0.19
rpoB 760361 c.555T>C synonymous_variant 0.18
rpoB 760370 c.564C>G synonymous_variant 0.18
rpoB 760376 p.Asp190Glu missense_variant 0.18
rpoB 760380 p.Thr192Leu missense_variant 0.18
rpoB 760406 c.600G>C synonymous_variant 0.21
rpoB 760412 c.606C>G synonymous_variant 0.23
rpoB 760424 c.618C>G synonymous_variant 0.23
rpoB 760430 c.624T>C synonymous_variant 0.25
rpoB 760475 c.669A>G synonymous_variant 0.24
rpoB 760481 c.675G>C synonymous_variant 0.24
rpoB 760484 c.678A>G synonymous_variant 0.24
rpoB 760522 p.Ser239Asn missense_variant 0.18
rpoB 760532 c.726T>C synonymous_variant 0.18
rpoB 760533 p.Val243Thr missense_variant 0.18
rpoB 760541 c.735G>C synonymous_variant 0.19
rpoB 760547 c.741G>C synonymous_variant 0.19
rpoB 760563 p.Arg253Met missense_variant 0.19
rpoB 760591 p.Val262Ala missense_variant 0.21
rpoB 760611 c.805T>C synonymous_variant 0.18
rpoB 760969 p.Ser388Leu missense_variant 0.94
rpoB 761723 p.Glu639Asp missense_variant 0.92
rpoB 761906 c.2100C>G synonymous_variant 0.15
rpoB 761916 p.Asp704Asn missense_variant 0.14
rpoB 762014 c.2208C>T synonymous_variant 0.16
rpoB 762017 c.2211A>G synonymous_variant 0.16
rpoB 762101 c.2295C>G synonymous_variant 0.16
rpoC 762989 c.-381G>C upstream_gene_variant 0.16
rpoC 762995 c.-375G>T upstream_gene_variant 0.19
rpoC 763013 c.-357C>G upstream_gene_variant 0.23
rpoC 763025 c.-345C>T upstream_gene_variant 0.22
rpoC 763028 c.-342T>C upstream_gene_variant 0.22
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763034 c.-336C>G upstream_gene_variant 0.25
rpoC 763040 c.-330C>G upstream_gene_variant 0.27
rpoC 763070 c.-300T>C upstream_gene_variant 0.29
rpoC 763085 c.-285C>G upstream_gene_variant 0.28
rpoC 763115 c.-255T>C upstream_gene_variant 0.24
rpoC 763136 c.-234C>T upstream_gene_variant 0.19
rpoC 763148 c.-222G>C upstream_gene_variant 0.18
rpoC 763158 c.-212C>T upstream_gene_variant 0.17
rpoC 763166 c.-204A>G upstream_gene_variant 0.16
rpoC 763441 c.72C>T synonymous_variant 0.15
rpoC 763444 c.75T>C synonymous_variant 0.15
rpoC 763723 c.354G>C synonymous_variant 0.15
rpoC 763732 c.363C>G synonymous_variant 0.15
rpoC 763741 c.372C>T synonymous_variant 0.14
rpoC 763853 p.Val162Ile missense_variant 0.16
rpoC 764365 c.996C>T synonymous_variant 0.15
rpoC 764764 c.1395T>C synonymous_variant 0.16
rpoC 764809 c.1440C>T synonymous_variant 0.17
rpoC 764815 c.1446A>G synonymous_variant 0.18
rpoC 764827 c.1458G>C synonymous_variant 0.19
rpoC 765700 c.2331T>C synonymous_variant 0.16
rpoC 765734 c.2365T>C synonymous_variant 0.16
rpoC 765739 c.2370G>T synonymous_variant 0.15
rpoC 765751 c.2382C>G synonymous_variant 0.16
rpoC 765753 p.Asp795Ala missense_variant 0.16
rpoC 765772 c.2403C>G synonymous_variant 0.18
rpoC 765787 c.2418C>T synonymous_variant 0.15
rpoC 765793 c.2424C>G synonymous_variant 0.17
rpoC 765796 c.2427C>T synonymous_variant 0.16
rpoC 765811 c.2442T>C synonymous_variant 0.17
rpoC 765814 c.2445A>G synonymous_variant 0.17
rpoC 765826 c.2457T>C synonymous_variant 0.17
rpoC 765835 c.2466C>T synonymous_variant 0.17
rpoC 765850 c.2481G>C synonymous_variant 0.19
rpoC 766135 c.2766G>A synonymous_variant 0.14
rpoC 766996 c.3627C>T synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781868 c.309T>C synonymous_variant 0.15
rpsL 781871 c.312G>C synonymous_variant 0.15
rpsL 781877 c.318T>C synonymous_variant 0.15
rpsL 781898 c.339A>T synonymous_variant 0.15
rpsL 781916 c.357T>C synonymous_variant 0.15
rpsL 781929 p.Gly124Ser missense_variant 0.16
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1303948 p.Gly340Arg missense_variant 0.14
fbiC 1303961 p.Arg344Leu missense_variant 0.14
fbiC 1303980 c.1050G>A synonymous_variant 0.14
fbiC 1304928 c.1998T>C synonymous_variant 0.14
fbiC 1304937 c.2007G>C synonymous_variant 0.15
fbiC 1304958 c.2028T>G synonymous_variant 0.15
fbiC 1304983 c.2053C>T synonymous_variant 0.17
fbiC 1304995 p.Leu689Met missense_variant 0.14
Rv1258c 1406685 p.Val219Ala missense_variant 1.0
embR 1416633 p.Leu239Val missense_variant 1.0
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.16
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.19
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.19
rrl 1473899 n.242A>C non_coding_transcript_exon_variant 0.19
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.21
rrl 1473986 n.329T>C non_coding_transcript_exon_variant 0.17
rrl 1473987 n.330G>A non_coding_transcript_exon_variant 0.17
rrl 1474093 n.436G>T non_coding_transcript_exon_variant 0.14
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.15
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.16
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.18
rrl 1474961 n.1304T>G non_coding_transcript_exon_variant 0.16
rrl 1474963 n.1306G>A non_coding_transcript_exon_variant 0.15
rrl 1474964 n.1307T>C non_coding_transcript_exon_variant 0.15
rrl 1474970 n.1313G>A non_coding_transcript_exon_variant 0.15
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.15
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.19
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.2
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.17
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.19
rrl 1475638 n.1981C>T non_coding_transcript_exon_variant 0.25
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.25
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.22
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.21
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.17
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.17
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.18
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.14
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.15
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15
inhA 1674414 c.213G>A synonymous_variant 1.0
inhA 1674434 p.Val78Ala missense_variant 0.98
rpsA 1833787 c.246C>G synonymous_variant 0.15
rpsA 1833790 c.249T>C synonymous_variant 0.15
rpsA 1833802 c.261A>G synonymous_variant 0.17
rpsA 1833811 c.270G>T synonymous_variant 0.15
rpsA 1834306 c.765T>C synonymous_variant 0.15
rpsA 1834348 c.807T>C synonymous_variant 0.19
rpsA 1834366 c.825A>G synonymous_variant 0.2
rpsA 1834396 c.855G>C synonymous_variant 0.21
rpsA 1834411 c.870T>C synonymous_variant 0.23
rpsA 1834417 c.876G>C synonymous_variant 0.24
rpsA 1834423 c.882G>C synonymous_variant 0.23
rpsA 1834435 c.894G>C synonymous_variant 0.22
rpsA 1834451 c.910T>C synonymous_variant 0.19
rpsA 1834465 c.924T>C synonymous_variant 0.16
rpsA 1834468 c.927A>G synonymous_variant 0.16
rpsA 1834489 c.948T>C synonymous_variant 0.16
rpsA 1834775 p.Ala412Thr missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518744 c.630C>T synonymous_variant 0.16
kasA 2518747 c.633C>G synonymous_variant 0.15
kasA 2518768 c.654C>T synonymous_variant 0.18
kasA 2518777 c.663C>T synonymous_variant 0.19
kasA 2518783 c.669T>C synonymous_variant 0.19
kasA 2518789 c.675G>C synonymous_variant 0.19
kasA 2518792 c.678C>A synonymous_variant 0.19
kasA 2518795 c.681C>G synonymous_variant 0.19
kasA 2518825 c.711T>C synonymous_variant 0.19
kasA 2518864 c.750G>C synonymous_variant 0.16
kasA 2518885 c.771T>C synonymous_variant 0.16
kasA 2518906 c.792A>G synonymous_variant 0.17
kasA 2518910 p.Leu266Met missense_variant 0.17
kasA 2518921 c.807T>C synonymous_variant 0.16
kasA 2518927 c.813C>G synonymous_variant 0.16
thyX 3067445 c.501C>G synonymous_variant 0.17
thyX 3067457 c.489C>G synonymous_variant 0.19
thyX 3067465 p.Ile161Val missense_variant 0.2
thyX 3067475 c.471A>G synonymous_variant 0.19
thyX 3067490 c.456C>G synonymous_variant 0.17
thyX 3067493 c.453A>G synonymous_variant 0.17
thyX 3067515 p.Ser144Thr missense_variant 0.17
thyX 3067530 p.Ala139Ser missense_variant 0.18
thyX 3067545 p.Glu134Ala missense_variant 0.18
thyX 3067549 p.Thr133Ala missense_variant 0.18
thyX 3067556 p.His130Gln missense_variant 0.19
thyX 3067559 c.387C>G synonymous_variant 0.16
thyX 3067565 p.Asp127Glu missense_variant 0.17
thyX 3067570 p.Ala126Pro missense_variant 0.17
thyX 3067577 c.369G>A synonymous_variant 0.17
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
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474352 p.Gly116Cys missense_variant 0.96
fprA 3475159 p.Asn385Asp missense_variant 1.0
Rv3236c 3612800 p.Val106Ala missense_variant 1.0
alr 3840559 p.Arg288Ser missense_variant 1.0
alr 3840618 p.Asp268Gly missense_variant 1.0
rpoA 3877613 p.Ile299Val missense_variant 0.15
rpoA 3877656 c.852T>G synonymous_variant 0.18
rpoA 3877704 c.804G>C synonymous_variant 0.15
rpoA 3877743 c.765T>C synonymous_variant 0.14
rpoA 3877782 c.726T>C synonymous_variant 0.14
rpoA 3877791 c.717C>G synonymous_variant 0.15
rpoA 3877890 c.618C>T synonymous_variant 0.14
rpoA 3877896 c.612G>C synonymous_variant 0.14
rpoA 3877909 p.Asn200Ser missense_variant 0.15
rpoA 3877920 c.588G>C synonymous_variant 0.15
rpoA 3877923 c.585C>T synonymous_variant 0.15
rpoA 3877926 c.582G>C synonymous_variant 0.15
rpoA 3877962 c.546G>T synonymous_variant 0.2
rpoA 3877986 c.522G>C synonymous_variant 0.2
rpoA 3877989 c.519A>G synonymous_variant 0.21
rpoA 3878001 c.507A>G synonymous_variant 0.21
rpoA 3878022 c.486T>C synonymous_variant 0.19
rpoA 3878028 c.480G>C synonymous_variant 0.17
rpoA 3878031 c.477T>C synonymous_variant 0.17
rpoA 3878040 c.468T>C synonymous_variant 0.17
rpoA 3878043 c.465G>A synonymous_variant 0.16
rpoA 3878058 c.450G>T synonymous_variant 0.14
rpoA 3878094 c.414C>G synonymous_variant 0.15
rpoA 3878106 c.402G>C synonymous_variant 0.15
rpoA 3878118 c.390T>C synonymous_variant 0.14
rpoA 3878163 c.345C>T synonymous_variant 0.14
rpoA 3878232 c.276G>C synonymous_variant 0.15
rpoA 3878292 c.216T>C synonymous_variant 0.16
rpoA 3878304 c.204G>C synonymous_variant 0.15
rpoA 3878313 c.195G>C synonymous_variant 0.15
rpoA 3878322 c.186A>G synonymous_variant 0.15
rpoA 3878364 c.144A>T synonymous_variant 0.16
rpoA 3878385 c.123C>G synonymous_variant 0.15
rpoA 3878415 c.93C>T synonymous_variant 0.16
rpoA 3878424 c.84G>C synonymous_variant 0.19
rpoA 3878436 c.72A>G synonymous_variant 0.2
rpoA 3878442 c.66G>C synonymous_variant 0.2
rpoA 3878454 c.54A>C synonymous_variant 0.18
rpoA 3878472 p.Asp12Glu missense_variant 0.14
clpC1 4038878 c.1827A>G synonymous_variant 0.16
clpC1 4038923 c.1782A>G synonymous_variant 0.15
clpC1 4038953 c.1752A>G synonymous_variant 0.16
clpC1 4038956 c.1749T>C synonymous_variant 0.16
clpC1 4039064 c.1641C>T synonymous_variant 0.15
clpC1 4039103 c.1602T>C synonymous_variant 0.14
clpC1 4039616 c.1089G>C synonymous_variant 0.15
clpC1 4039622 c.1083C>T synonymous_variant 0.15
clpC1 4040021 c.684A>C synonymous_variant 0.15
clpC1 4040024 c.681A>G synonymous_variant 0.15
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241665 c.1803G>C synonymous_variant 0.15
embC 4241671 c.1809T>C synonymous_variant 0.15
embC 4241843 p.Leu661Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243541 c.309C>T synonymous_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244379 p.Pro383Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247716 c.1203C>T synonymous_variant 0.14
aftB 4269351 c.-515C>T upstream_gene_variant 0.96
ubiA 4269387 p.Glu149Asp missense_variant 0.98
aftB 4269522 c.-686C>T upstream_gene_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 0.98
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0