TB-Profiler result

Run: SRR18910985
Summary

Run ID: SRR18910985

Sample name:

Date: 03-04-2023 20:39:53

Number of reads: 222099

Percentage reads mapped: 99.29

Strain:

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
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 8151 p.Ile284Val missense_variant 0.2
gyrA 8271 p.Ala324Thr missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490707 c.-76G>T upstream_gene_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575376 p.Ser10* stop_gained 0.13
mshA 576751 p.Lys468Asn missense_variant 0.75
ccsA 619937 p.Trp16* stop_gained 0.13
rpoB 760352 p.Asp182Glu missense_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765793 c.2424C>A synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775792 p.Val897Phe missense_variant 0.11
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800744 c.-65G>T upstream_gene_variant 0.22
fbiC 1303873 p.Leu315Met missense_variant 0.12
embR 1416880 p.Phe156Leu missense_variant 1.0
embR 1417442 c.-95C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471673 n.-173C>T upstream_gene_variant 0.17
rrl 1475513 n.1856T>A non_coding_transcript_exon_variant 0.2
rrl 1475675 n.2018A>G non_coding_transcript_exon_variant 0.33
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 0.15
fabG1 1673681 p.Pro81Gln missense_variant 0.15
fabG1 1674101 p.Val221Asp missense_variant 0.13
inhA 1674772 p.Ala191Thr missense_variant 0.67
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834186 c.645C>G synonymous_variant 0.17
rpsA 1834907 p.Ser456Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918072 p.Ala45Thr missense_variant 0.15
ndh 2102267 p.Val259Gly missense_variant 0.13
katG 2154579 p.Asp511Glu missense_variant 0.18
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156501 c.-390C>T upstream_gene_variant 0.17
katG 2156530 c.-419G>A upstream_gene_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169775 p.Ala280Thr missense_variant 0.5
PPE35 2170349 p.Thr88Ala missense_variant 0.13
PPE35 2170357 p.Ala86Thr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714278 p.Asp352Gly missense_variant 0.2
eis 2715328 p.Thr2Asn missense_variant 0.15
ahpC 2726669 p.Asp159Glu missense_variant 0.2
pepQ 2859700 p.Gly240Ala missense_variant 0.67
ribD 2986915 p.Gly26Val missense_variant 0.12
ribD 2986945 p.Asp36Gly missense_variant 0.11
Rv2752c 3064794 c.1398C>T synonymous_variant 0.14
Rv2752c 3065227 c.964delG frameshift_variant 0.14
thyA 3074199 c.273G>A synonymous_variant 0.2
thyA 3074258 c.214C>T synonymous_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087504 p.Val229Ile missense_variant 0.22
ald 3087530 c.711G>T synonymous_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613170 c.-54G>A upstream_gene_variant 0.25
fbiA 3641522 p.Ala327Val missense_variant 0.13
fbiB 3641590 p.Gly19Val missense_variant 0.13
rpoA 3877899 c.609C>T synonymous_variant 0.2
ddn 3987144 p.Gln101Lys missense_variant 0.12
ddn 3987242 p.Tyr133* stop_gained 0.12
clpC1 4038467 c.2238C>T synonymous_variant 0.14
clpC1 4039230 p.Thr492Asn missense_variant 0.17
clpC1 4039307 c.1397delA frameshift_variant 0.29
embC 4240214 p.Asp118Asn missense_variant 0.18
embC 4240546 c.684G>A synonymous_variant 0.2
embA 4242577 c.-656A>G upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242756 p.Ile965Asn missense_variant 0.11
embA 4242994 c.-239G>T upstream_gene_variant 0.12
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245847 p.Ser872Phe missense_variant 0.5
embA 4246351 p.Ser1040* stop_gained 0.2
embB 4247040 c.531dupC frameshift_variant 0.18
aftB 4267051 p.Glu596Lys missense_variant 0.25
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267731 p.Arg369Leu missense_variant 0.22
ethA 4326311 p.Asn388Thr missense_variant 0.1
whiB6 4338286 p.Val79Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407916 p.Arg96Leu missense_variant 0.11
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408398 c.-196C>T upstream_gene_variant 0.13