TB-Profiler result

Run: ERR137226
Summary

Run ID: ERR137226

Sample name:

Date: 31-03-2023 13:59:43

Number of reads: 1258071

Percentage reads mapped: 34.21

Strain: lineage2.2.1

Drug-resistance: MDR-TB

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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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpoB 762089 p.Glu761Asp missense_variant 1.0 rifampicin
rrs 1472362 n.517C>T non_coding_transcript_exon_variant 0.86 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
eis 2715369 c.-37G>T upstream_gene_variant 0.95 kanamycin
embB 4247574 p.Asp354Ala missense_variant 1.0 ethambutol
ethA 4327480 c.-7T>C upstream_gene_variant 1.0 ethionamide
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 766645 p.Glu1092Asp 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 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 1472089 n.244C>T non_coding_transcript_exon_variant 0.31
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.49
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.68
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.8
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.81
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.83
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.83
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.88
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.85
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.84
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.82
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.8
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.78
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.77
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.77
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.74
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.68
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.67
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.66
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.66
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.12
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.48
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.48
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.49
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.51
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.57
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.81
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.85
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.84
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.84
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.85
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.86
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.86
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.61
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.48
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.45
rrs 1472669 n.824_825insTAG non_coding_transcript_exon_variant 0.32
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.24
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.7
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.82
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.83
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.85
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.91
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.92
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.92
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.93
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.92
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.88
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.67
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.34
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.34
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.12
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.14
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.13
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.14
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.15
rrl 1473867 n.210C>G non_coding_transcript_exon_variant 0.14
rrl 1474527 n.870T>G non_coding_transcript_exon_variant 0.48
rrl 1474528 n.871T>C non_coding_transcript_exon_variant 0.49
rrl 1474530 n.873G>C non_coding_transcript_exon_variant 0.48
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.44
rrl 1474539 n.882C>G non_coding_transcript_exon_variant 0.44
rrl 1474542 n.885A>C non_coding_transcript_exon_variant 0.42
rrl 1474552 n.895C>G non_coding_transcript_exon_variant 0.42
rrl 1474558 n.901G>C non_coding_transcript_exon_variant 0.44
rrl 1474562 n.905G>C non_coding_transcript_exon_variant 0.43
rrl 1474570 n.913G>T non_coding_transcript_exon_variant 0.43
rrl 1474571 n.914G>T non_coding_transcript_exon_variant 0.43
rrl 1474578 n.921A>G non_coding_transcript_exon_variant 0.42
rrl 1474584 n.927C>G non_coding_transcript_exon_variant 0.42
rrl 1474586 n.929T>A non_coding_transcript_exon_variant 0.42
rrl 1474609 n.952G>A non_coding_transcript_exon_variant 0.19
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.42
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.42
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.42
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.46
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.59
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.63
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 0.66
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.69
rrl 1474816 n.1159G>C non_coding_transcript_exon_variant 0.77
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.75
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.76
rrl 1474830 n.1173A>C non_coding_transcript_exon_variant 0.74
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.75
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.77
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.71
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.71
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.61
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.49
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.47
rrl 1474910 n.1253C>G non_coding_transcript_exon_variant 0.42
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.41
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.43
rrl 1474928 n.1271C>A non_coding_transcript_exon_variant 0.29
rrl 1475115 n.1458A>C non_coding_transcript_exon_variant 0.1
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.13
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.13
rrl 1475707 n.2050T>A non_coding_transcript_exon_variant 0.12
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.12
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.12
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.44
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.44
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.45
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.45
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.5
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.55
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.1
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.46
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.51
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.51
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.51
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.48
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.48
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.46
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.43
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.42
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.44
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.44
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.44
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.45
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.52
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.41
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.35
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.34
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.33
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.33
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.33
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.33
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.33
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.33
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.46
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.48
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.49
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.84
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.86
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.9
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.9
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.92
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.93
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.93
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.96
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.96
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.96
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.94
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.93
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.89
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.86
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.85
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.84
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.38
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.84
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.84
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.84
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.84
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.83
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.83
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.84
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.81
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.78
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.75
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.53
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.56
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.54
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.5
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.5
rrl 1476621 n.2964C>T non_coding_transcript_exon_variant 0.5
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.5
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.49
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.49
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.49
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.49
rrl 1476657 n.3000G>T non_coding_transcript_exon_variant 0.4
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.26
rrl 1476664 n.3007T>C non_coding_transcript_exon_variant 0.19
rrl 1476665 n.3008T>C non_coding_transcript_exon_variant 0.2
rpsA 1834177 c.636A>C synonymous_variant 0.95
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
PPE35 2169866 c.747G>C synonymous_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289226 p.Ile6Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339556 p.Gly147Arg missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.28
embC 4239842 c.-21C>A upstream_gene_variant 0.26
embC 4242425 p.Arg855Gly missense_variant 0.18
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 4338563 c.-42G>T upstream_gene_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