TB-Profiler result

Run: ERR987695
Summary

Run ID: ERR987695

Sample name:

Date: 02-04-2023 13:20:26

Number of reads: 1603249

Percentage reads mapped: 22.81

Strain: lineage4.3.4.2

Drug-resistance: HR-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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.74 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
rpoB 761180 c.1374A>G synonymous_variant 0.12
rpoB 761189 c.1383T>C synonymous_variant 0.13
rpoB 761195 c.1389G>C synonymous_variant 0.13
rpoB 761196 p.Leu464Val missense_variant 0.13
rpoB 761213 c.1407G>C synonymous_variant 0.14
rpoB 761234 c.1428G>C synonymous_variant 0.14
rpoB 762101 c.2295C>T synonymous_variant 1.0
rpoC 764611 c.1242G>C synonymous_variant 0.15
rpoC 764632 c.1263T>C synonymous_variant 0.14
rpoC 764635 c.1266C>G synonymous_variant 0.14
rpoC 764650 c.1281G>T synonymous_variant 0.12
rpoC 764660 p.Val431Ile missense_variant 0.12
rpoC 764665 c.1296C>T synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
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 1472102 n.257G>A non_coding_transcript_exon_variant 0.12
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.13
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.13
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.13
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.18
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.19
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.2
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.2
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.21
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.31
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.26
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.38
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.21
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.1
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.11
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.26
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.27
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.27
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.66
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.68
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.77
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.79
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.78
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.8
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.77
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.76
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.12
rrs 1472701 n.856T>A non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.51
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.56
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.76
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.76
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.75
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.72
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.71
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.36
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.18
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.19
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.22
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.12
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.14
rrl 1474184 n.527C>A non_coding_transcript_exon_variant 0.14
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.12
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.17
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.1
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.1
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.16
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.12
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.16
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.22
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.23
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.24
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.24
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.31
rrl 1474839 n.1182C>T non_coding_transcript_exon_variant 0.48
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.47
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.48
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.47
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.47
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.48
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.41
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.39
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.42
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.41
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.43
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.22
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.19
rrl 1475687 n.2030C>T non_coding_transcript_exon_variant 0.19
rrl 1475688 n.2031G>C non_coding_transcript_exon_variant 0.19
rrl 1475692 n.2035G>A non_coding_transcript_exon_variant 0.19
rrl 1475695 n.2038G>A non_coding_transcript_exon_variant 0.18
rrl 1475699 n.2042C>A non_coding_transcript_exon_variant 0.19
rrl 1475704 n.2047C>T non_coding_transcript_exon_variant 0.18
rrl 1475707 n.2050T>C non_coding_transcript_exon_variant 0.18
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.18
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.16
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.17
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.19
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.19
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.25
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.24
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.18
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.16
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.17
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.17
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.18
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.17
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.11
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.14
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.13
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.11
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.11
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.11
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.18
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.1
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.11
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.72
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.67
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.75
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.75
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.79
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.8
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.81
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.82
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.84
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.83
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.79
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.74
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.67
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.65
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.62
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.64
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.64
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.62
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.62
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.63
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.63
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.6
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.59
rrl 1476572 n.2915G>T non_coding_transcript_exon_variant 0.44
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.42
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.41
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.44
rpsA 1833790 c.249T>C synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155038 c.1074C>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519242 c.1128C>A synonymous_variant 0.15
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328019 c.-546G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407980 p.Pro75Ala missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0