TB-Profiler result

Run: SRR6855939
Summary

Run ID: SRR6855939

Sample name:

Date: 04-04-2023 17:50:47

Number of reads: 643191

Percentage reads mapped: 88.32

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 0.99
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 0.97
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576113 p.Arg256Trp missense_variant 0.11
ccsA 620625 p.Ile245Met missense_variant 1.0
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
Rv1258c 1407483 c.-143C>A upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.12
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.12
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.13
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.1
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.1
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.12
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.11
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.11
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.11
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.11
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.11
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.11
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.11
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.11
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.17
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.1
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.21
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.26
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>A non_coding_transcript_exon_variant 0.21
rrl 1476363 n.2706A>G non_coding_transcript_exon_variant 0.21
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.15
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.1
rrl 1476381 n.2724G>T non_coding_transcript_exon_variant 0.22
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.16
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.25
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.23
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.39
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.3
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.3
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.35
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.26
rrl 1476513 n.2856G>A non_coding_transcript_exon_variant 0.16
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.16
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.16
rrl 1476518 n.2861G>A non_coding_transcript_exon_variant 0.17
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.17
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.17
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.17
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.17
rrl 1476530 n.2873C>A non_coding_transcript_exon_variant 0.17
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.16
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.15
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.19
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.19
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.24
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.24
rrl 1476581 n.2924G>A non_coding_transcript_exon_variant 0.24
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.19
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.19
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.13
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.12
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.12
inhA 1673694 c.-508G>A upstream_gene_variant 0.1
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103226 c.-184C>G upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155518 p.Trp198Cys missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338976 c.-142G>A upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640757 p.Gly72Val missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.95
embA 4245834 c.2603_2609delTGGTGGT frameshift_variant 0.1
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