TB-Profiler result

Run: SRR833158
Summary

Run ID: SRR833158

Sample name:

Date: 04-04-2023 21:11:50

Number of reads: 199808

Percentage reads mapped: 76.63

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
gyrB 6100 c.861G>T synonymous_variant 0.22
gyrB 6128 p.Tyr297His missense_variant 0.2
gyrA 6865 c.-437G>T upstream_gene_variant 0.22
gyrB 7008 p.Leu590Arg missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491187 c.405G>A synonymous_variant 0.67
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760791 p.Glu329Lys missense_variant 0.29
rpoC 763031 c.-339T>C upstream_gene_variant 0.75
rpoB 763235 p.Glu1143Asp missense_variant 0.22
rpoC 763487 p.Lys40Glu missense_variant 0.25
mmpL5 775719 p.Val921Gly missense_variant 0.29
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn 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 801380 p.Val191Ala missense_variant 0.25
fbiC 1302772 c.-159T>G upstream_gene_variant 0.67
fbiC 1303234 p.Cys102Arg missense_variant 0.2
fbiC 1305353 p.Gly808Ala missense_variant 1.0
Rv1258c 1406714 c.627A>G synonymous_variant 0.67
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475343 n.1686A>G non_coding_transcript_exon_variant 0.2
rrl 1475344 n.1687G>A non_coding_transcript_exon_variant 0.22
fabG1 1673270 c.-170G>C upstream_gene_variant 0.33
rpsA 1833536 c.-6A>G upstream_gene_variant 0.22
rpsA 1833540 c.-2A>C upstream_gene_variant 0.22
rpsA 1834177 c.636A>C synonymous_variant 1.0
ndh 2101929 p.Thr372Ala missense_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167911 p.Ala901Gly missense_variant 1.0
PPE35 2167915 p.Asn900Asp missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168683 c.1927_1929delACC conservative_inframe_deletion 0.25
Rv1979c 2223133 p.Ile11Ser missense_variant 0.33
eis 2715071 p.Ala88Pro missense_variant 1.0
eis 2715441 c.-109C>T upstream_gene_variant 1.0
ahpC 2726533 c.347_362delGCGAACTCAGCCAAGC frameshift_variant 0.33
ahpC 2726635 p.Ser148Leu missense_variant 1.0
pepQ 2860385 p.Ala12Thr missense_variant 0.29
Rv2752c 3065931 c.261C>T synonymous_variant 0.4
thyA 3073902 p.Ala190Gly missense_variant 0.4
thyA 3073906 p.Ala189Gly missense_variant 0.4
thyA 3074130 c.342G>T synonymous_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087147 p.Ser110Pro missense_variant 0.5
ald 3087818 p.Cys333* stop_gained 1.0
Rv3083 3448423 c.-81C>A upstream_gene_variant 0.25
Rv3083 3448425 c.-79_-78delATinsGC upstream_gene_variant 0.25
Rv3083 3448427 c.-77C>G upstream_gene_variant 0.25
Rv3083 3449892 c.1389C>T synonymous_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568768 c.-89A>G upstream_gene_variant 0.29
whiB7 3568773 c.-95_-94insCTGC upstream_gene_variant 0.29
whiB7 3568867 c.-188A>G upstream_gene_variant 0.33
whiB7 3568869 c.-190C>G upstream_gene_variant 0.33
rpoA 3878194 p.Val105Gly missense_variant 0.67
ddn 3986997 p.Thr52Ser missense_variant 0.67
clpC1 4038540 p.Leu722Gln missense_variant 0.17
clpC1 4040634 p.Asn24Ile missense_variant 0.13
embA 4244725 p.Asp498Ala missense_variant 0.33
embA 4246112 c.2881_2884delGTTC frameshift_variant 0.33
embA 4246120 p.Val963Ala missense_variant 0.33
embB 4246421 c.-93G>A upstream_gene_variant 1.0
embB 4247474 p.Arg321Ser missense_variant 0.33
embB 4247476 c.964delT frameshift_variant 0.33
aftB 4267124 c.1713T>A synonymous_variant 0.5
ubiA 4269188 p.Thr216Pro missense_variant 0.5
ubiA 4269190 p.Ser215Thr missense_variant 0.5
ubiA 4269482 p.Trp118Arg missense_variant 0.25
ethA 4327199 p.Tyr92Ser missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408466 c.-264C>T upstream_gene_variant 0.5