TB-Profiler result

Run: ERR212112
Summary

Run ID: ERR212112

Sample name:

Date: 31-03-2023 15:47:47

Number of reads: 1854326

Percentage reads mapped: 66.97

Strain: lineage4;lineage1.2.2.1

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
lineage4 Euro-American LAM;T;S;X;H None 0.06
lineage1 Indo-Oceanic EAI RD239 0.95
lineage1.2.2 Indo-Oceanic EAI1 RD239 0.94
lineage1.2.2.1 Indo-Oceanic NA RD239 0.97
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
gyrB 5075 c.-165C>T upstream_gene_variant 0.96
gyrB 6112 p.Met291Ile missense_variant 0.98
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.96
gyrA 9143 c.1842T>C synonymous_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491060 p.Met93Thr missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.96
ccsA 620659 p.Arg257Cys missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.88
rpoC 763884 p.Ala172Val missense_variant 0.97
rpoC 763886 c.517C>A synonymous_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800899 p.Ala31Thr missense_variant 0.96
embR 1417019 p.Cys110Tyr missense_variant 0.95
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471842 n.-4T>G upstream_gene_variant 0.97
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.2
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.2
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.2
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.2
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.2
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.21
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.14
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.12
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.13
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.27
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.51
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.5
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.47
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.47
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.46
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.4
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.53
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.53
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.52
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.3
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.57
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.52
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.52
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.51
rrs 1473001 n.1156G>C non_coding_transcript_exon_variant 0.43
rrs 1473002 n.1157G>A non_coding_transcript_exon_variant 0.43
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.44
rrs 1473008 n.1163C>T non_coding_transcript_exon_variant 0.43
rrs 1473009 n.1164T>G non_coding_transcript_exon_variant 0.43
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.45
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.27
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.27
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.28
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.3
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.3
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.31
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.39
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.27
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.28
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.28
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.27
rrs 1473262 n.1417T>A non_coding_transcript_exon_variant 0.27
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.18
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.21
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.21
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.22
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.22
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.22
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.22
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.23
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.32
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.34
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.36
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.41
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.41
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.42
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.41
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.41
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.44
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.51
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.51
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.52
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.61
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.61
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.61
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.6
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.6
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.66
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.66
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.71
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.73
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.75
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.63
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.61
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.59
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.54
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.33
rrl 1476513 n.2856G>A non_coding_transcript_exon_variant 0.13
rrl 1476565 n.2908G>A non_coding_transcript_exon_variant 0.16
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.16
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.16
rrl 1476577 n.2920T>A non_coding_transcript_exon_variant 0.18
rrl 1476578 n.2921C>A non_coding_transcript_exon_variant 0.18
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.18
rrl 1476592 n.2935G>A non_coding_transcript_exon_variant 0.17
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.18
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.16
rrl 1476605 n.2948C>T non_coding_transcript_exon_variant 0.16
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.16
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.15
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.16
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.16
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.16
rrl 1476637 n.2980C>A non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.97
PPE35 2167926 p.Leu896Ser missense_variant 0.89
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.91
ahpC 2726051 c.-142G>A upstream_gene_variant 0.93
ahpC 2726338 p.Val49Gly missense_variant 0.22
Rv2752c 3065782 p.Gly137Val missense_variant 0.97
thyA 3073806 c.666C>G synonymous_variant 0.32
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 0.93
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.98
fprA 3475159 p.Asn385Asp missense_variant 0.94
rpoA 3878641 c.-134C>G upstream_gene_variant 0.22
clpC1 4038857 c.1848C>A synonymous_variant 0.24
clpC1 4040517 p.Val63Ala missense_variant 0.89
embC 4240671 p.Thr270Ile missense_variant 0.94
embC 4240750 c.888C>T synonymous_variant 0.96
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4242425 p.Arg855Gly missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 0.94
embB 4247646 p.Glu378Ala missense_variant 0.94
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 0.95
ethA 4326439 p.Asn345Lys missense_variant 0.97
ethR 4327450 c.-99G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.93
gid 4407588 c.615A>G synonymous_variant 0.96
gid 4407873 c.330G>T synonymous_variant 0.93