TB-Profiler result

Run: SRR1172798
Summary

Run ID: SRR1172798

Sample name:

Date: 03-04-2023 03:10:37

Number of reads: 1560884

Percentage reads mapped: 78.54

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 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 762965 c.-405T>C upstream_gene_variant 0.11
rpoC 762989 c.-381G>C upstream_gene_variant 0.1
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
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.16
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.24
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.24
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.23
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.22
rrs 1472243 n.398G>A non_coding_transcript_exon_variant 0.18
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.13
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.12
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.18
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.1
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.13
rrs 1472716 n.871C>G non_coding_transcript_exon_variant 0.15
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.27
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.27
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.26
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.23
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.23
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.18
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.18
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.18
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.18
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.18
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.15
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.15
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.17
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.16
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.18
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.19
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.19
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.17
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.17
rrs 1473139 n.1294T>C non_coding_transcript_exon_variant 0.15
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.19
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.19
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.24
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.21
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.23
rrs 1473201 n.1356A>T non_coding_transcript_exon_variant 0.18
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.2
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.27
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.31
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.31
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.31
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.31
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.3
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.27
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.28
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.28
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.34
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.26
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.3
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.14
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.22
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.12
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.12
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.12
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.12
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
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 2155081 p.Thr344Met missense_variant 0.97
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.97
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 4407927 p.Glu92Asp missense_variant 1.0