TB-Profiler result

Run: ERR7737736
Summary

Run ID: ERR7737736

Sample name:

Date: 02-04-2023 05:28:39

Number of reads: 2677903

Percentage reads mapped: 93.3

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
rpsL 781822 p.Lys88Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
pncA 2273378 c.-70_*15302del transcript_ablation 1.0 pyrazinamide
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
mshA 576108 p.Ala254Gly missense_variant 0.3
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 0.97
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 1472225 n.380C>A non_coding_transcript_exon_variant 0.11
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.27
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.34
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.35
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.33
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 0.19
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.32
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.31
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.29
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.17
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.31
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.31
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.17
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.2
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.12
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.29
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.14
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.19
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.33
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.28
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.26
rrs 1472690 n.845C>G non_coding_transcript_exon_variant 0.15
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.1
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.14
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.15
rrs 1472741 n.896G>C non_coding_transcript_exon_variant 0.1
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.15
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.15
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.32
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.32
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.33
rrs 1472967 n.1122G>T non_coding_transcript_exon_variant 0.26
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.28
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.33
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.26
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.28
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.35
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.33
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.33
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.32
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.33
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.31
rrs 1473054 n.1209C>T non_coding_transcript_exon_variant 0.16
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.16
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.1
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.14
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.17
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.29
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.24
rrl 1475877 n.2220C>T non_coding_transcript_exon_variant 0.11
rrl 1475880 n.2223C>G non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>G non_coding_transcript_exon_variant 0.11
rrl 1475882 n.2225C>G non_coding_transcript_exon_variant 0.12
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.11
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.11
rrl 1475895 n.2238C>A non_coding_transcript_exon_variant 0.11
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.11
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.12
rrl 1475914 n.2257C>T non_coding_transcript_exon_variant 0.12
rrl 1475916 n.2259C>A non_coding_transcript_exon_variant 0.12
rrl 1475920 n.2263G>C non_coding_transcript_exon_variant 0.12
rrl 1475924 n.2267A>G non_coding_transcript_exon_variant 0.11
rrl 1475933 n.2276C>G non_coding_transcript_exon_variant 0.11
rrl 1475939 n.2282G>C non_coding_transcript_exon_variant 0.11
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.11
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.15
rrl 1476229 n.2572C>A non_coding_transcript_exon_variant 0.16
rrl 1476242 n.2585C>T non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>A non_coding_transcript_exon_variant 0.2
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.21
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476265 n.2608G>A non_coding_transcript_exon_variant 0.21
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.2
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.19
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.19
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.19
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.19
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.19
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.24
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.24
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.25
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.37
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.43
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.42
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.42
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.42
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.42
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.21
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.27
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.45
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.32
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.21
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.42
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.34
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.31
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.14
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.27
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.26
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.26
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.28
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.27
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.28
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.28
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.28
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.28
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.26
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.11
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.11
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.1
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.13
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 2221889 p.Val426Ile missense_variant 0.98
Rv1979c 2223293 c.-129A>G 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
embA 4246085 p.Glu951Asp missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.16
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268456 c.381G>A synonymous_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