TB-Profiler result

Run: ERR2513058
Summary

Run ID: ERR2513058

Sample name:

Date: 31-03-2023 19:26:27

Number of reads: 5783888

Percentage reads mapped: 99.66

Strain: lineage3

Drug-resistance: Sensitive

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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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9318 p.Leu673Val missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575283 c.-65C>G upstream_gene_variant 1.0
mshA 575325 c.-23G>A upstream_gene_variant 0.14
mshA 575397 p.Arg17His missense_variant 0.18
mshA 576581 p.Pro412Ser missense_variant 0.14
ccsA 619999 p.Ala37Thr missense_variant 0.17
rpoB 759746 c.-61C>T upstream_gene_variant 0.99
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762719 c.-651C>T upstream_gene_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
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
fbiC 1304437 p.Glu503Lys missense_variant 0.22
embR 1416814 c.534G>A synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917992 p.Arg18Gln missense_variant 0.33
tlyA 1918120 p.Ala61Thr missense_variant 0.17
tlyA 1918207 p.Gly90Cys missense_variant 0.18
tlyA 1918217 p.Thr93Ile missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170453 p.Gly54Ser missense_variant 0.12
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
kasA 2518654 c.540C>T synonymous_variant 0.13
kasA 2518677 p.Gly188Asp missense_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2860146 c.273C>T synonymous_variant 0.67
thyX 3067483 p.Ala155Pro missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474966 c.960G>A synonymous_variant 0.14
whiB7 3568857 c.-178C>T upstream_gene_variant 1.0
fbiB 3641990 p.Met152Ile missense_variant 0.25
fbiB 3642005 c.471C>A synonymous_variant 0.22
fbiB 3642074 c.540C>T synonymous_variant 0.14
fbiB 3642163 p.Thr210Ile missense_variant 0.12
fbiB 3642239 c.705G>A synonymous_variant 0.2
panD 4044023 c.259C>T synonymous_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243948 p.Arg239Gln missense_variant 0.12
embA 4244575 p.Ala448Glu missense_variant 0.29
embB 4246731 p.Ser73Leu missense_variant 0.4
embB 4246739 p.Pro76Ser missense_variant 0.25
embB 4246751 p.Thr80Ala missense_variant 0.25
embB 4247060 p.Pro183Ser missense_variant 0.12
embB 4247855 p.Gly448Ser missense_variant 0.4
embB 4247870 p.Ala453Thr missense_variant 0.67
embB 4247889 p.Gly459Asp missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0