TB-Profiler result

Run: ERR4821399
Summary

Run ID: ERR4821399

Sample name:

Date: 01-04-2023 17:13:55

Number of reads: 464567

Percentage reads mapped: 99.15

Strain:

Drug-resistance: Other

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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
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
gid 4408121 p.Gly28* stop_gained 1.0 streptomycin
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9002 c.1701C>A synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9618 p.Glu773* stop_gained 0.15
fgd1 491126 p.Ala115Val missense_variant 0.29
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576087 p.Phe247Tyr missense_variant 0.12
mshA 576107 p.Ala254Ser missense_variant 0.15
ccsA 620328 c.438G>T synonymous_variant 0.11
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761833 c.2029delT frameshift_variant 0.18
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764843 p.Ala492Pro missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778245 p.Gly79Asp missense_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801322 p.Asn172Tyr missense_variant 0.29
rplC 801376 p.Gly190Ser missense_variant 1.0
rplC 801460 c.652T>C stop_lost&splice_region_variant 0.11
Rv1258c 1406674 c.667C>A synonymous_variant 0.12
Rv1258c 1406947 p.Ala132Ser missense_variant 0.15
embR 1416583 c.765G>A synonymous_variant 0.29
embR 1416888 p.Arg154Ser missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833636 p.Tyr32Cys missense_variant 0.17
tlyA 1917887 c.-53G>T upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156290 c.-179C>T upstream_gene_variant 0.17
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168675 c.1938T>C synonymous_variant 1.0
PPE35 2170416 p.Ala66Glu missense_variant 0.29
Rv1979c 2221835 p.Pro444Thr missense_variant 0.25
Rv1979c 2221939 p.Arg409Gln missense_variant 0.14
Rv1979c 2222176 p.Leu330Ser missense_variant 0.14
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
pncA 2289547 c.-306G>T upstream_gene_variant 0.4
pncA 2290016 c.-775T>A upstream_gene_variant 0.18
ahpC 2725914 c.-279G>A upstream_gene_variant 0.12
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726650 p.Ser153Leu missense_variant 0.12
folC 2746834 c.765G>A synonymous_variant 0.29
pepQ 2860507 c.-89C>A upstream_gene_variant 0.11
ribD 2986873 p.Thr12Asn missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339160 p.Ala15Thr missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474379 p.Ala125Ser missense_variant 0.5
fbiA 3641514 p.Cys324* stop_gained 0.12
alr 3841162 p.Ala87Thr missense_variant 0.17
clpC1 4038658 p.Lys683Glu missense_variant 0.2
clpC1 4040459 c.246C>A synonymous_variant 0.14
panD 4044267 p.Met5Ile missense_variant 0.18
panD 4044399 c.-119delG upstream_gene_variant 0.2
embC 4239994 c.132C>G synonymous_variant 0.14
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245985 p.Pro918Leu missense_variant 0.25
embB 4248074 p.Glu521Lys missense_variant 0.12
embB 4248775 c.2262C>A synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0