TB-Profiler result

Run: SRR6832659
Summary

Run ID: SRR6832659

Sample name:

Date: 04-04-2023 17:33:47

Number of reads: 2724877

Percentage reads mapped: 93.15

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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 0.5 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
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 1472150 n.305T>A non_coding_transcript_exon_variant 0.13
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.13
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.17
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.19
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.18
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.19
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.19
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.19
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.2
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.19
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.13
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.33
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.32
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.32
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.32
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.33
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.33
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.32
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.33
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.23
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.29
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.5
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.5
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.5
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.49
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.47
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.4
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 0.13
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.13
rrl 1474869 n.1212G>C non_coding_transcript_exon_variant 0.15
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.16
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.16
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.16
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.16
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.16
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.16
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.16
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.1
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.1
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.1
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.1
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.1
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.1
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.4
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.43
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.54
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.59
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.61
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.62
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.62
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.61
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.69
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.68
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.68
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.68
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.58
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.57
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.46
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.45
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.44
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.42
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.42
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.42
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.42
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.42
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.42
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.44
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.44
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.37
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.27
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.27
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.28
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169879 p.Phe245Cys missense_variant 0.97
PPE35 2170419 p.Met65Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086742 c.-78A>C 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
ddn 3987233 c.390C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249594 c.3081G>A synonymous_variant 1.0
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0