TB-Profiler result

Run: ERR4772229
Summary

Run ID: ERR4772229

Sample name:

Date: 01-04-2023 06:45:54

Number of reads: 949650

Percentage reads mapped: 99.13

Strain: La1.2

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
La1 M.bovis None None 1.0
La1.2 M.bovis None None 0.97
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7171 c.-131C>A upstream_gene_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7821 c.520C>T synonymous_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8592 p.Gln431Glu missense_variant 0.12
gyrA 8615 p.Met438Ile missense_variant 0.13
gyrA 8741 c.1440C>T synonymous_variant 1.0
gyrA 8997 c.1696T>C synonymous_variant 0.11
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575619 p.Arg91Leu missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.24
rpoB 760048 p.Glu81Val missense_variant 0.2
rpoB 760353 p.Glu183* stop_gained 0.14
rpoB 760663 p.Ala286Glu missense_variant 0.13
rpoB 762210 p.Pro802Thr missense_variant 0.15
rpoB 762238 p.Glu811Gly missense_variant 0.15
rpoB 763020 p.Ala1072Thr missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766962 p.Gly1198Asp missense_variant 0.2
rpoC 767197 p.Glu1276Asp missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776795 c.1686C>A synonymous_variant 0.15
mmpL5 777404 c.1077C>T synonymous_variant 0.12
mmpR5 779122 p.Val45Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781494 c.-66G>A upstream_gene_variant 0.12
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1304696 p.Trp589Leu missense_variant 0.12
fbiC 1304955 p.Glu675Asp missense_variant 0.18
fbiC 1305498 c.2568C>A synonymous_variant 0.13
Rv1258c 1406242 p.Ala367Ser missense_variant 0.13
Rv1258c 1406521 p.Gly274* stop_gained 0.12
Rv1258c 1406693 c.648G>T synonymous_variant 0.12
Rv1258c 1407280 p.Ala21Thr missense_variant 0.14
embR 1416550 c.798C>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
inhA 1674557 p.Gly119Asp missense_variant 0.18
rpsA 1834851 p.Ala437Asp missense_variant 0.2
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918713 p.Asp258Glu missense_variant 0.13
ndh 2101802 p.Leu414Gln missense_variant 0.12
ndh 2101890 p.Val385Ile missense_variant 0.17
ndh 2102106 p.Gly313Arg missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
katG 2156465 c.-354C>T upstream_gene_variant 1.0
katG 2156478 c.-367A>C upstream_gene_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168261 p.Phe784Leu missense_variant 0.12
PPE35 2168814 c.1798dupA frameshift_variant 1.0
PPE35 2169602 c.1011C>A synonymous_variant 0.16
PPE35 2170048 p.Leu189Val missense_variant 0.13
PPE35 2170053 p.Thr187Ser missense_variant 0.13
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222918 c.245_246dupCA frameshift_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289884 c.-643G>A upstream_gene_variant 0.14
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518945 p.Met277Ile missense_variant 0.12
pepQ 2860132 p.Gly96Ala missense_variant 0.11
Rv2752c 3065381 p.Arg271Cys missense_variant 0.13
Rv2752c 3065888 p.Val102Ile missense_variant 1.0
thyX 3067786 p.Thr54Ala missense_variant 1.0
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
fbiD 3339154 p.Ile13Leu missense_variant 1.0
Rv3083 3448737 c.234C>T synonymous_variant 0.12
Rv3083 3448745 p.Ile81Ser missense_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
Rv3083 3448889 p.Arg129Leu missense_variant 0.25
fprA 3473891 c.-116A>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
alr 3840355 p.Asp356Asn missense_variant 0.22
clpC1 4038242 c.2463C>T synonymous_variant 0.14
clpC1 4038403 c.2302T>C synonymous_variant 1.0
clpC1 4038766 p.Leu647Ile missense_variant 0.12
clpC1 4038858 p.Arg616Leu missense_variant 0.13
clpC1 4040361 p.Glu115Gly missense_variant 0.14
clpC1 4040877 c.-173T>A upstream_gene_variant 0.12
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244790 p.Ala520Thr missense_variant 0.18
embB 4245524 c.-990G>A upstream_gene_variant 0.14
embB 4246551 p.Asn13Ser missense_variant 0.94
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247173 c.660G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4249412 p.Arg967Trp missense_variant 0.12
aftB 4267129 p.Ala570Ser missense_variant 0.18
aftB 4267858 p.Ile327Val missense_variant 1.0
aftB 4268476 p.Gly121Trp missense_variant 0.14
aftB 4268598 p.Glu80Gly missense_variant 0.22
aftB 4268602 c.235C>T synonymous_variant 0.22
aftB 4268851 c.-15T>G upstream_gene_variant 0.2
aftB 4268855 c.-19G>A upstream_gene_variant 0.2
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
ubiA 4269502 p.Val111Ala missense_variant 0.13
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
aftB 4269666 c.-830G>T upstream_gene_variant 0.13
whiB6 4338259 p.Arg88Leu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407743 p.Arg154Trp missense_variant 1.0