TB-Profiler result

Run: SRR6896381
Summary

Run ID: SRR6896381

Sample name:

Date: 04-04-2023 18:04:22

Number of reads: 577689

Percentage reads mapped: 97.84

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 7271 c.-31A>T upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8721 c.1420C>A synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491390 p.Tyr203Cys missense_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 0.87
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761010 p.Asp402Tyr missense_variant 0.11
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
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 778762 c.-282G>A upstream_gene_variant 0.12
mmpS5 778869 p.Leu13Ile missense_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407282 p.Ala20Asp missense_variant 0.12
atpE 1460904 c.-141C>T upstream_gene_variant 0.11
atpE 1460939 c.-106G>T upstream_gene_variant 0.12
atpE 1461008 c.-37G>C upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.14
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.11
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.1
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.19
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.21
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.21
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.24
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.32
rrl 1476468 n.2811C>A non_coding_transcript_exon_variant 0.11
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.22
fabG1 1674182 c.743G>T stop_lost&splice_region_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834846 p.Phe435Leu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102340 c.703C>A synonymous_variant 0.12
ndh 2102354 p.Gln230Arg missense_variant 0.13
katG 2154724 p.Arg463Leu missense_variant 0.91
katG 2155283 p.Gly277Cys missense_variant 0.2
katG 2155651 p.Lys154Arg missense_variant 0.12
PPE35 2167682 c.2931G>A synonymous_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168058 p.Gln852Arg missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223336 c.-172G>A upstream_gene_variant 0.11
kasA 2518637 p.Ser175Pro missense_variant 0.11
folC 2746250 p.Ala450Val missense_variant 0.18
folC 2746855 c.744A>G synonymous_variant 0.1
pepQ 2859593 p.Ala276Thr missense_variant 0.14
Rv2752c 3066090 c.101delT frameshift_variant 0.1
thyX 3067913 c.33G>T synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087425 c.606C>T synonymous_variant 0.12
ald 3087431 c.612T>C synonymous_variant 0.12
fbiD 3339688 c.576delC frameshift_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475149 c.1143C>A synonymous_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640811 p.Gln90Arg missense_variant 0.11
ddn 3986934 p.Arg31Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244104 p.Ala291Gly missense_variant 0.11
embA 4244185 p.Ser318Thr missense_variant 0.2
embA 4245346 p.Met705Lys missense_variant 0.14
embB 4249739 p.Ala1076Thr missense_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0