TB-Profiler result

Run: ERR473337
Summary

Run ID: ERR473337

Sample name:

Date: 01-04-2023 06:38:01

Number of reads: 2878417

Percentage reads mapped: 86.66

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 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 0.44 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 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417140 p.Ala70Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.21
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.26
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.26
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.39
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.39
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.38
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.39
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.37
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.37
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.38
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.38
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.28
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.26
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.26
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.15
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.12
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.3
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.35
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.35
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.35
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.36
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.36
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.35
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.35
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.3
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.29
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.3
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.32
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.45
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.44
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.43
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.43
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.41
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.32
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.22
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.24
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.23
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.28
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.28
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.28
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.28
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.29
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.3
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.33
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.34
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.35
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.1
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrl 1474839 n.1182C>T non_coding_transcript_exon_variant 0.12
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.13
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.12
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.13
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.12
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.13
rrl 1474903 n.1246T>A non_coding_transcript_exon_variant 0.13
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.12
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.13
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.13
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.36
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.47
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.49
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.53
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.55
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.6
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.6
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.69
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.69
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.66
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.66
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.59
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.55
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.37
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.22
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.2
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.2
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.21
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.21
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.21
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.21
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.22
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.22
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.21
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.22
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.18
fabG1 1673249 c.-191C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747022 p.Val193Ile missense_variant 1.0
folC 2747263 c.336C>A synonymous_variant 0.19
thyA 3073806 c.666C>G synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448894 p.Tyr131Asp missense_variant 1.0
Rv3083 3449642 p.Asn380Ser missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641164 p.Ile208Val missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.2
embC 4239842 c.-21C>A upstream_gene_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268861 c.-25T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0