TB-Profiler result

Run: ERR245795
Summary

Run ID: ERR245795

Sample name:

Date: 31-03-2023 18:21:46

Number of reads: 8600854

Percentage reads mapped: 71.34

Strain: lineage4.3.2.1;lineage3.1.1

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
lineage3 East-African-Indian CAS RD750 0.38
lineage4 Euro-American LAM;T;S;X;H None 0.66
lineage4.3 Euro-American (LAM) mainly-LAM None 0.65
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 0.33
lineage4.3.2 Euro-American (LAM) LAM3 None 0.66
lineage3.1.1 East-African-Indian CAS1-Kili RD750 0.35
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 0.62
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 5520 p.Pro94Leu missense_variant 0.68
gyrA 7222 c.-80C>T upstream_gene_variant 0.67
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.99
fgd1 491742 c.960T>C synonymous_variant 0.3
rpoB 759746 c.-61C>T upstream_gene_variant 0.34
rpoB 762249 p.Leu815Val missense_variant 0.16
rpoC 762434 c.-936T>G upstream_gene_variant 0.4
rpoC 762836 c.-534C>G upstream_gene_variant 0.34
rpoC 763031 c.-339T>C upstream_gene_variant 0.44
rpoC 764725 p.Phe452Leu missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 0.59
rpoC 766628 p.Arg1087Gly missense_variant 0.27
rpoC 767305 p.Tyr1312* stop_gained 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.36
mmpL5 777399 p.Thr361Arg missense_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417501 c.-154A>C upstream_gene_variant 0.26
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.17
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.23
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.24
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.36
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.36
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.37
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.38
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.38
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.28
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.26
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.19
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.17
rrs 1472256 n.411T>G non_coding_transcript_exon_variant 0.17
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.17
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.14
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.7
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.15
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.23
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.26
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.24
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.19
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.13
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.25
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.27
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.28
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.32
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.13
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.11
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.11
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.12
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.13
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.16
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.24
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.36
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.36
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.37
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.4
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.35
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.36
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.34
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.32
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.24
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.18
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.17
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.17
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.17
rrs 1473070 n.1225G>A non_coding_transcript_exon_variant 0.17
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.16
rrs 1473179 n.1334C>T non_coding_transcript_exon_variant 0.17
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.19
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.16
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.17
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.25
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.14
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.19
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.13
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.13
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.14
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.18
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.19
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.21
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.22
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.21
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.21
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.19
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.15
rrl 1475122 n.1465C>T non_coding_transcript_exon_variant 0.12
rrl 1475129 n.1472G>C non_coding_transcript_exon_variant 0.14
rrl 1475154 n.1497C>A non_coding_transcript_exon_variant 0.14
rrl 1475167 n.1510T>A non_coding_transcript_exon_variant 0.16
rrl 1475175 n.1518G>A non_coding_transcript_exon_variant 0.16
rrl 1475182 n.1525T>A non_coding_transcript_exon_variant 0.15
rrl 1475188 n.1531C>T non_coding_transcript_exon_variant 0.11
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.15
rrl 1475672 n.2015C>G non_coding_transcript_exon_variant 0.12
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.12
rrl 1475687 n.2030C>T non_coding_transcript_exon_variant 0.18
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.2
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.21
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.21
rrl 1475707 n.2050T>A non_coding_transcript_exon_variant 0.21
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.21
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.16
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.15
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.23
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.23
rrl 1475843 n.2186G>A non_coding_transcript_exon_variant 0.18
rrl 1475849 n.2192G>A non_coding_transcript_exon_variant 0.18
rrl 1475853 n.2196C>T non_coding_transcript_exon_variant 0.17
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.16
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.16
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.23
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.35
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.37
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.45
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.48
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.48
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.68
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.6
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.6
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.48
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.4
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.22
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.14
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.18
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.17
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.18
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.24
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.26
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.22
rrl 1476621 n.2964C>A non_coding_transcript_exon_variant 0.12
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.12
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.12
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.12
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.12
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.12
fabG1 1673449 p.Thr4Pro missense_variant 0.36
inhA 1674892 p.Asn231Asp missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.41
ndh 2102891 p.Phe51Ser missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 0.41
PPE35 2167926 p.Leu896Ser missense_variant 0.32
PPE35 2169866 c.747G>C synonymous_variant 0.3
PPE35 2170461 p.Gly51Glu missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.36
pncA 2289365 c.-125delC upstream_gene_variant 0.37
eis 2714366 p.Val323Leu missense_variant 0.3
eis 2715586 c.-254G>C upstream_gene_variant 0.54
ahpC 2725954 c.-239C>T upstream_gene_variant 0.28
ahpC 2726105 c.-88G>A upstream_gene_variant 0.41
folC 2746186 c.1413G>C synonymous_variant 0.22
pepQ 2859381 c.1038C>G synonymous_variant 0.25
pepQ 2859787 p.Val211Ala missense_variant 0.33
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.23
thyA 3073868 p.Thr202Ala missense_variant 0.54
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449058 p.Ser185Arg missense_variant 0.32
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.24
fbiB 3642734 c.1200G>C synonymous_variant 0.2
ddn 3987013 p.Gly57Ala missense_variant 0.2
clpC1 4038287 c.2418C>T synonymous_variant 0.73
clpC1 4038857 c.1848C>A synonymous_variant 0.17
clpC1 4039363 p.Ala448Pro missense_variant 0.3
clpC1 4039932 p.Gly258Val missense_variant 0.28
embC 4239842 c.-21C>A upstream_gene_variant 0.17
embC 4240646 p.Phe262Val missense_variant 0.19
embC 4241429 p.Phe523Val missense_variant 0.48
embC 4241456 p.Ala532Pro missense_variant 0.41
embC 4241562 p.Arg567His missense_variant 0.38
embC 4242075 p.Arg738Gln missense_variant 0.32
embC 4242425 p.Arg855Gly missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.28
ubiA 4269529 p.Ala102Gly missense_variant 0.25
ethA 4327672 c.-199G>A upstream_gene_variant 0.32
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.35
gid 4408156 p.Leu16Arg missense_variant 0.68