TB-Profiler result

Run: ERR176482
Summary

Run ID: ERR176482

Sample name:

Date: 31-03-2023 15:02:31

Number of reads: 1723663

Percentage reads mapped: 57.98

Strain: lineage4.3.4.2.1

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 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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
gyrB 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.27
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.2
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.21
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.22
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.24
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.31
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.33
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.38
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.17
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.1
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.1
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.14
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.12
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.12
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.24
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.24
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.24
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.24
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.26
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.26
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.18
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.23
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.37
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.6
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.71
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.75
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.75
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.75
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.75
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.67
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.25
rrs 1472827 n.982G>A non_coding_transcript_exon_variant 0.15
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.15
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.34
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.34
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.39
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.42
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.42
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.42
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.57
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.46
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.45
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.45
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.46
rrs 1473262 n.1417T>A non_coding_transcript_exon_variant 0.45
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.29
rrs 1473281 n.1436C>G non_coding_transcript_exon_variant 0.12
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 0.11
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.14
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.14
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.13
rrl 1474578 n.921A>G non_coding_transcript_exon_variant 0.12
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.12
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.21
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.21
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.21
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.24
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.28
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.23
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.19
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.16
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.12
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.34
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.41
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.41
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.39
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.39
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.44
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.38
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.38
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.61
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.64
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.66
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.69
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.68
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.68
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.67
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.67
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.68
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.73
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.75
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.74
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.82
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.82
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.79
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.79
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.74
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.83
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.83
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.89
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.82
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.89
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.89
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.7
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.71
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.76
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.52
rrl 1476513 n.2856G>A non_coding_transcript_exon_variant 0.28
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.28
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.22
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.22
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.22
rrl 1476544 n.2887T>C non_coding_transcript_exon_variant 0.16
rrl 1476545 n.2888C>T non_coding_transcript_exon_variant 0.16
rrl 1476565 n.2908G>A non_coding_transcript_exon_variant 0.41
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.38
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.39
rrl 1476577 n.2920T>A non_coding_transcript_exon_variant 0.43
rrl 1476578 n.2921C>A non_coding_transcript_exon_variant 0.42
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.41
rrl 1476592 n.2935G>A non_coding_transcript_exon_variant 0.37
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.36
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.38
rrl 1476605 n.2948C>T non_coding_transcript_exon_variant 0.39
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.39
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.37
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.39
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.37
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.37
rrl 1476637 n.2980C>A non_coding_transcript_exon_variant 0.37
rrl 1476657 n.3000G>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747263 c.336C>A synonymous_variant 0.17
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.19
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.23
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.56
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0