TB-Profiler result

Run: SRR16295827
Summary

Run ID: SRR16295827

Sample name:

Date: 03-04-2023 17:21:28

Number of reads: 5750650

Percentage reads mapped: 80.11

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 0.99
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 576108 p.Ala254Gly missense_variant 0.53
mshA 576111 p.Ala255Gly missense_variant 0.27
rpoB 761605 p.Leu600Pro missense_variant 0.11
rpoB 761610 p.Gly602Arg missense_variant 0.14
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
mmpR5 779181 c.198delG frameshift_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
rrl 1473407 n.-251A>C upstream_gene_variant 0.11
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.11
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.12
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.21
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.21
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.21
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.21
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.15
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.15
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.16
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.15
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.15
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.15
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.15
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.14
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.14
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.26
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.31
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.37
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.38
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.36
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.33
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.33
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.34
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.36
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.36
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.41
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.31
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.28
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.27
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.28
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.26
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.26
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.26
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.26
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.26
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.26
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.26
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.27
rrl 1476572 n.2915G>T non_coding_transcript_exon_variant 0.24
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.23
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.24
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.23
rrl 1476595 n.2938C>T non_coding_transcript_exon_variant 0.13
rpsA 1833641 p.Asn34Asp missense_variant 0.18
rpsA 1833648 p.Gly36Val missense_variant 0.24
rpsA 1833651 p.Asp37Ala missense_variant 0.22
rpsA 1833658 c.117C>T synonymous_variant 0.21
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103078 c.-36C>A upstream_gene_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170035 p.Val193Ala missense_variant 0.15
PPE35 2170220 c.393C>T synonymous_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715467 c.-135A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.97
ald 3086997 p.Thr60Gly missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3640879 c.-656C>T upstream_gene_variant 1.0
fbiA 3641270 p.Tyr243Phe missense_variant 0.16
fbiA 3641280 p.Ile246Met missense_variant 0.15
rpoA 3878559 c.-52G>C upstream_gene_variant 0.17
rpoA 3878580 c.-73A>C upstream_gene_variant 0.25
clpC1 4038333 p.Phe791Ser missense_variant 0.13
clpC1 4038337 p.Leu790Phe missense_variant 0.17
clpC1 4038342 p.Lys788Arg missense_variant 0.19
clpC1 4038346 p.Glu787Lys missense_variant 0.19
panD 4043960 p.Val108Ile missense_variant 0.12
panD 4043973 c.309G>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.24
embB 4246548 p.Pro12Gln missense_variant 0.24
embB 4246555 c.42G>C synonymous_variant 0.26
embB 4246556 p.Ala15Pro missense_variant 0.26
embB 4246563 p.Leu17Trp missense_variant 0.28
embB 4246567 c.54G>T synonymous_variant 0.32
embB 4246584 p.Arg24Pro missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326474 p.Pro334Ala 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