TB-Profiler result

Run: ERR4816804
Summary

Run ID: ERR4816804

Sample name:

Date: 01-04-2023 14:38:36

Number of reads: 4495484

Percentage reads mapped: 96.52

Strain: lineage4.1

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
lineage4.1 Euro-American T;X;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 0.82 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
mmpL5 777310 p.Gly391Ser missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416357 c.990delC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.31
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.38
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.38
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.4
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.12
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.28
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.29
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.19
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.27
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.14
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.36
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.36
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.36
rrs 1472524 n.679G>A non_coding_transcript_exon_variant 0.12
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.55
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.68
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.74
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.78
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.76
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.77
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.62
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.63
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.37
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.86
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.85
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.85
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.44
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.33
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.22
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.22
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.31
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.73
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.77
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.78
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.78
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.74
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.74
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.72
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.55
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.27
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.33
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.2
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.29
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.29
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.29
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.43
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.29
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.29
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.33
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.29
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.3
rrs 1473034 n.1189A>G non_coding_transcript_exon_variant 0.2
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.4
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.3
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.3
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.25
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.13
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.13
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.13
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.13
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.21
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.25
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.22
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.25
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.18
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.25
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.29
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.22
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.2
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.22
rrl 1475767 n.2110_2111insT non_coding_transcript_exon_variant 0.22
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.18
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.33
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.33
rrl 1476194 n.2537A>T non_coding_transcript_exon_variant 0.33
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.43
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.3
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.2
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.3
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.3
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.2
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.15
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.2
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.2
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.3
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.18
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.18
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.22
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.29
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.22
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.14
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.27
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.15
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.22
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.1
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.15
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.14
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.15
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.15
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.11
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.19
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.12
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.13
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.2
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474774 c.768G>C synonymous_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 1.0
alr 3841505 c.-85C>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4326117 p.Thr453Ser missense_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0