TB-Profiler result

Run: SRR4033407
Summary

Run ID: SRR4033407

Sample name:

Date: 04-04-2023 06:04:36

Number of reads: 645781

Percentage reads mapped: 95.36

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 1.0
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 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 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766389 p.Gly1007Asp missense_variant 0.11
rpoC 766533 p.Leu1055Pro missense_variant 0.18
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 776303 c.2177delC frameshift_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 1406920 p.Arg141Cys missense_variant 0.15
Rv1258c 1406950 p.Ala131Thr missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.15
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.12
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.12
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.26
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.17
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.13
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.15
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.2
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.21
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.24
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.2
rrl 1474425 n.768A>G non_coding_transcript_exon_variant 0.29
rrl 1474428 n.771C>T non_coding_transcript_exon_variant 0.29
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.25
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.18
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.18
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.18
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.17
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.13
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156145 c.-34C>A upstream_gene_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.2
pepQ 2860263 c.156C>T synonymous_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086885 c.66C>T synonymous_variant 0.15
fbiD 3339545 p.Arg143Gln missense_variant 0.18
Rv3083 3448574 p.Thr24Met missense_variant 0.12
Rv3083 3449919 c.1416C>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612103 p.Leu338Phe missense_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641636 c.102C>T synonymous_variant 0.15
fbiB 3642064 p.Ala177Val missense_variant 0.18
alr 3841500 c.-80C>T upstream_gene_variant 0.15
embC 4241158 c.1297_1298dupGC frameshift_variant 0.33
embC 4242609 p.Glu916Gly missense_variant 0.29
embC 4242642 p.Arg927His missense_variant 0.2
embA 4243172 c.-61G>A upstream_gene_variant 0.14
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244216 c.984C>T synonymous_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269022 p.Ala271Asp missense_variant 0.12
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