TB-Profiler result

Run: ERR2446413
Summary

Run ID: ERR2446413

Sample name:

Date: 15-08-2022 11:02:15

Number of reads: 382778

Percentage reads mapped: 99.65

Strain: lineage4.6.3

Drug-resistance: Sensitive

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.3 Euro-American T;LAM None 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 8049 p.Ser250Ala missense_variant 1.0
rpoB 762873 p.Tyr1023His missense_variant 0.36
rpoB 762876 p.Ile1024Tyr missense_variant 0.33
rpoB 762879 p.Met1025Leu missense_variant 0.33
rpoB 762888 p.His1028Asn missense_variant 0.41
rpoC 762899 c.-471G>C upstream_gene_variant 0.41
rpoB 762911 p.Ile1035Met missense_variant 0.42
rpoC 762920 c.-450C>T upstream_gene_variant 0.38
rpoC 762923 c.-447C>G upstream_gene_variant 0.39
rpoC 762929 c.-441G>T upstream_gene_variant 0.41
rpoB 762939 p.Met1045Leu missense_variant 0.39
rpoB 762942 p.Ile1046Val missense_variant 0.41
rpoC 762965 c.-405T>C upstream_gene_variant 0.41
rpoC 762980 c.-390T>C upstream_gene_variant 0.4
rpoC 762989 c.-381G>C upstream_gene_variant 0.35
rpoC 762995 c.-375G>T upstream_gene_variant 0.31
rpoC 762998 c.-372G>A upstream_gene_variant 0.27
rpoC 764602 c.1233C>T synonymous_variant 0.23
rpoC 764605 c.1236G>C synonymous_variant 0.41
rpoC 764611 c.1242G>C synonymous_variant 0.53
rpoC 764632 c.1263T>C synonymous_variant 0.5
rpoC 764650 c.1281G>T synonymous_variant 0.5
rpoC 764668 c.1299C>T synonymous_variant 0.53
rpoC 764672 p.Gln435Tyr missense_variant 0.53
rpoC 764677 c.1308C>G synonymous_variant 0.53
rpoC 764678 p.Lys437Arg missense_variant 0.5
rpoC 764695 c.1326T>C synonymous_variant 0.48
rpoC 764701 c.1332C>G synonymous_variant 0.45
rpoC 764705 p.Leu446Lys missense_variant 0.45
rpoC 764875 c.1506C>G synonymous_variant 0.14
rpoC 764887 c.1518G>T synonymous_variant 0.3
rpoC 764888 c.1519T>C synonymous_variant 0.3
rpoC 764893 c.1524T>C synonymous_variant 0.3
rpoC 764902 c.1533C>G synonymous_variant 0.32
rpoC 764911 c.1542A>G synonymous_variant 0.3
rpoC 764912 p.Met515Val missense_variant 0.3
rpoC 764918 p.Val517Ile missense_variant 0.3
rpoC 764935 c.1566T>C synonymous_variant 0.29
rpoC 764948 c.1579T>C synonymous_variant 0.32
rpoC 764953 c.1584G>C synonymous_variant 0.29
rpoC 764956 c.1587T>C synonymous_variant 0.29
rpoC 764957 p.Glu530Thr missense_variant 0.29
rpoC 764968 c.1599T>C synonymous_variant 0.32
rpoC 764998 c.1629G>C synonymous_variant 0.27
rpoC 765974 p.Asp869Tyr missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303143 c.213G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.14
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.48
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.53
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.58
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.6
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.55
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.57
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.53
rrs 1472243 n.398G>A non_coding_transcript_exon_variant 0.53
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.53
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.53
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.53
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.31
rrs 1472279 n.434T>C non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.15
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.23
rrs 1472648 n.803G>C non_coding_transcript_exon_variant 0.21
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.18
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.54
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.59
rrs 1472716 n.871C>G non_coding_transcript_exon_variant 0.59
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.63
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.63
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.66
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.68
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.69
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.68
rrs 1472827 n.982G>C non_coding_transcript_exon_variant 0.5
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.4
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.75
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.75
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.75
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.77
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.79
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.8
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.8
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.79
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.79
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.82
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.85
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.84
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.82
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.82
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.69
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.55
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.55
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.47
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.23
rrs 1473139 n.1294T>C non_coding_transcript_exon_variant 0.36
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.5
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.5
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.46
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.47
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.44
rrs 1473201 n.1356A>T non_coding_transcript_exon_variant 0.41
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.41
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.26
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.26
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.38
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.46
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.72
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.77
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.77
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.77
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.78
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.8
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.8
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.8
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.8
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.8
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.86
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.86
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.87
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.87
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.87
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.84
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.84
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.74
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.74
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.77
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.75
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.71
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.55
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.29
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 1.0
Rv1979c 2222580 c.585G>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290036 c.-795C>A upstream_gene_variant 0.17
thyA 3073956 c.516G>T synonymous_variant 0.11
Rv3083 3448613 p.Arg37Leu missense_variant 0.2
Rv3236c 3612775 c.342C>T synonymous_variant 0.18
ubiA 4269601 p.Val78Asp missense_variant 0.17