TB-Profiler result

Run: SRR6797751
Summary

Run ID: SRR6797751

Sample name:

Date: 04-04-2023 16:17:10

Number of reads: 2838474

Percentage reads mapped: 82.08

Strain: lineage2.2.1

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 0.97 isoniazid
embB 4247429 p.Met306Leu missense_variant 1.0 ethambutol
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 0.98
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763501 p.Asp44Glu missense_variant 1.0
rpoC 764921 p.Glu518Gln missense_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 0.98
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 1472690 n.845C>T non_coding_transcript_exon_variant 0.14
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.27
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.34
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.39
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.57
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.57
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.57
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.54
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.48
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.39
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.16
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.1
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.15
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.15
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.16
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.19
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.2
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.19
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.26
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.15
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.15
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.15
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.15
rrs 1473262 n.1417T>A non_coding_transcript_exon_variant 0.15
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.12
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.12
rrl 1474187 n.530T>C non_coding_transcript_exon_variant 0.12
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.12
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.13
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.13
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.14
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.11
rrl 1474265 n.608G>A non_coding_transcript_exon_variant 0.11
rrl 1474268 n.611C>T non_coding_transcript_exon_variant 0.11
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.12
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.18
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.15
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.16
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.16
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.16
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.16
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.16
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.16
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.27
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.25
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.31
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.33
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.32
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.32
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.32
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.32
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.32
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.39
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.39
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.39
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.53
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.56
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.62
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.61
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.72
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.72
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.76
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.76
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.76
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.76
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.63
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.6
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.61
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.57
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.36
rrl 1476565 n.2908G>A non_coding_transcript_exon_variant 0.23
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.23
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.24
rrl 1476577 n.2920T>A non_coding_transcript_exon_variant 0.21
rrl 1476578 n.2921C>A non_coding_transcript_exon_variant 0.21
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.23
rrl 1476592 n.2935G>A non_coding_transcript_exon_variant 0.23
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.23
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.21
rrl 1476605 n.2948C>T non_coding_transcript_exon_variant 0.23
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.24
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.22
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.22
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.2
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.2
rrl 1476637 n.2980C>A non_coding_transcript_exon_variant 0.18
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
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066237 c.-47_-46delCCinsTT upstream_gene_variant 1.0
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 1.0
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