TB-Profiler result

Run: ERR2514070
Summary

Run ID: ERR2514070

Sample name:

Date: 31-03-2023 20:05:56

Number of reads: 797007

Percentage reads mapped: 99.36

Strain: lineage3

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
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
rrs 1472359 n.514A>C non_coding_transcript_exon_variant 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576184 c.837A>G synonymous_variant 0.13
mshA 576751 p.Lys468Asn missense_variant 0.33
rpoB 761249 c.1443A>G synonymous_variant 0.1
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766945 c.3576A>G synonymous_variant 0.15
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
rplC 801129 c.321C>T synonymous_variant 0.14
fbiC 1303111 p.Ser61Gly missense_variant 0.12
fbiC 1304495 p.Gly522Ala missense_variant 0.12
Rv1258c 1406613 p.Glu243Ala missense_variant 1.0
Rv1258c 1406998 p.Ala115Ser missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834159 c.618G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.96
PPE35 2167745 p.Thr956Arg missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.19
PPE35 2167967 c.2646A>C synonymous_variant 0.19
PPE35 2168818 p.Gly599Cys missense_variant 0.12
PPE35 2169910 p.Asn235Tyr missense_variant 0.18
PPE35 2170147 p.Ser156Ala missense_variant 0.18
Rv1979c 2222553 c.611delC frameshift_variant 0.12
Rv1979c 2222732 c.432delT frameshift_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3065473 p.Ser240Phe missense_variant 1.0
thyA 3074197 p.Pro92Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448876 p.Thr125Ala missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474165 c.159C>G synonymous_variant 0.12
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.14
fbiB 3641582 c.48C>T synonymous_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.12
rpoA 3877954 p.Gln185Pro missense_variant 0.11
clpC1 4039158 p.Lys516Arg missense_variant 0.17
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249195 c.2682C>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408175 p.Ala10Pro missense_variant 1.0