TB-Profiler result

Run: ERR036225
Summary

Run ID: ERR036225

Sample name:

Date: 31-03-2023 08:30:55

Number of reads: 5129574

Percentage reads mapped: 88.6

Strain: lineage4.3.4.2.1

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
lineage4.3.4.2 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.54 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
gyrB 5347 c.108G>C synonymous_variant 0.23
gyrB 6140 p.Val301Leu missense_variant 1.0
gyrA 6445 c.-857C>T upstream_gene_variant 0.99
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.3
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.99
rpoB 759831 p.Thr9Pro missense_variant 0.31
rpoB 762249 p.Leu815Val missense_variant 0.19
rpoC 762836 c.-534C>G upstream_gene_variant 0.37
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.28
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.11
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.13
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.14
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.32
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.35
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.35
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.45
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.44
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.46
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.42
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.35
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.34
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.34
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.3
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.2
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.2
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.18
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.2
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.35
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.36
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.35
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.36
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.36
rrs 1472412 n.567A>C non_coding_transcript_exon_variant 0.29
rrs 1472415 n.570T>G non_coding_transcript_exon_variant 0.25
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.19
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.17
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.18
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.16
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.18
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.22
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.24
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.27
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.27
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.1
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.34
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.4
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.57
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.58
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.59
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.54
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.46
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.36
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.17
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.12
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.15
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.19
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.19
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.12
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.28
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.18
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.2
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.12
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.12
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.12
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.12
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.13
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.14
rrl 1474903 n.1246T>A non_coding_transcript_exon_variant 0.13
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.13
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.13
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.3
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.29
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.3
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.36
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.35
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.27
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.23
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.31
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.3
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.29
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.31
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.28
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.27
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.27
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.26
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.39
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.56
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.57
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.61
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.63
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.63
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.64
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.78
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.72
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.72
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.72
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.59
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.46
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.22
inhA 1674892 p.Asn231Asp missense_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.18
eis 2715586 c.-254G>C upstream_gene_variant 0.6
pepQ 2859381 c.1038C>G synonymous_variant 0.27
ribD 2987307 p.Ala157Pro missense_variant 0.18
thyA 3073806 c.666C>G synonymous_variant 0.18
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
fprA 3475280 p.Val425Gly missense_variant 0.41
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
rpoA 3878238 p.Asp90Glu missense_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039932 p.Gly258Val missense_variant 0.27
embC 4242425 p.Arg855Gly missense_variant 0.18
embC 4242476 p.Pro872Ala missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.61
embC 4242827 p.Leu989Val missense_variant 0.34
embB 4247126 p.Thr205Ala missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0