TB-Profiler result

Run: ERR4822200
Summary

Run ID: ERR4822200

Sample name:

Date: 01-04-2023 17:41:43

Number of reads: 2784025

Percentage reads mapped: 93.44

Strain: lineage4.3.4.1

Drug-resistance: Other

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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
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 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 0.94 streptomycin
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 9304 p.Gly668Asp missense_variant 1.0
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 1472075 n.230A>G non_coding_transcript_exon_variant 0.15
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.17
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.36
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.42
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.44
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.45
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.47
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.42
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.71
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.73
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.5
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.56
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.92
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.93
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.93
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.89
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.91
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.89
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.9
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.89
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.82
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.93
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.88
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.88
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.82
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.6
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.6
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.5
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.5
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.5
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.5
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.5
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.5
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.5
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.21
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.94
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.96
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.94
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.93
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.91
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.89
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.89
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.92
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.67
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.67
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.71
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.86
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 1.0
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.88
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.56
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.67
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.89
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.67
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.7
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.22
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.33
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.78
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.57
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.71
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.57
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.71
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.5
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.5
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.42
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.44
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.46
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.71
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.65
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.59
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.62
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.48
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.17
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.2
rrl 1473384 n.-274A>G upstream_gene_variant 0.19
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.5
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1475965 n.2308A>T non_coding_transcript_exon_variant 0.18
rrl 1476113 n.2456T>G non_coding_transcript_exon_variant 0.33
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.22
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.3
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.47
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.4
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.45
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.2
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.38
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.38
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.21
rrl 1476600 n.2943A>C non_coding_transcript_exon_variant 0.15
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.23
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.21
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.36
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.29
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.18
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.28
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.19
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.28
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.18
rrl 1476633 n.2976A>G non_coding_transcript_exon_variant 0.12
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.13
rpsA 1834261 c.720A>G synonymous_variant 0.12
rpsA 1834264 c.723G>C synonymous_variant 0.14
rpsA 1834294 c.753G>C synonymous_variant 0.14
rpsA 1834298 p.Gln253Glu missense_variant 0.14
rpsA 1834306 c.765T>C synonymous_variant 0.13
rpsA 1834307 p.Asp256Gln missense_variant 0.13
rpsA 1834312 c.771G>A synonymous_variant 0.11
rpsA 1834327 c.786G>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222854 p.Ile104Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
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
clpC1 4039991 c.714G>A synonymous_variant 1.0
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