TB-Profiler result

Run: SRR13861414
Summary

Run ID: SRR13861414

Sample name:

Date: 03-04-2023 09:31:08

Number of reads: 2279346

Percentage reads mapped: 57.04

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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 0.13 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 9502 p.Arg734His missense_variant 1.0
rpoB 759681 c.-126C>T upstream_gene_variant 1.0
rpoB 761239 p.Cys478Tyr missense_variant 1.0
mmpL5 776185 p.Lys766Glu missense_variant 1.0
mmpL5 779400 c.-920C>A upstream_gene_variant 1.0
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.1
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.11
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.11
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.11
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.11
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.11
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.12
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.11
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.11
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.11
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.11
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.1
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.13
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.15
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.16
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.14
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.13
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.13
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.14
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.12
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.13
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.13
rrs 1472865 n.1020C>G non_coding_transcript_exon_variant 1.0
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.13
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.21
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.21
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.23
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.22
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.22
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.22
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.22
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.21
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.21
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.21
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.22
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.22
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.21
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.21
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.21
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.22
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.42
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.46
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.52
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.51
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.46
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.52
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.35
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.51
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.48
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.45
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.52
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.51
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.34
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.19
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.19
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.18
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.17
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.17
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.16
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.17
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.17
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.17
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.16
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.18
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.16
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.16
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.16
tlyA 1918063 p.Pro42Ala missense_variant 1.0
ndh 2102985 p.Ile20Val missense_variant 1.0
katG 2155856 p.Thr86Ser missense_variant 1.0
PPE35 2169233 c.1379delT frameshift_variant 1.0
Rv2752c 3065376 c.815delT frameshift_variant 1.0
Rv2752c 3066351 c.-160G>T upstream_gene_variant 1.0
thyX 3067731 p.Val72Ala missense_variant 1.0
thyX 3067825 p.Arg41Gly missense_variant 1.0
fbiD 3338949 c.-169_-168insT upstream_gene_variant 1.0
Rv3083 3448707 c.204G>A synonymous_variant 1.0
Rv3083 3449768 p.Thr422Lys missense_variant 1.0
fbiB 3641403 c.-132C>T upstream_gene_variant 1.0
alr 3841257 p.His55Leu missense_variant 1.0
rpoA 3877601 p.Gln303* stop_gained 1.0
ddn 3986668 c.-176T>C upstream_gene_variant 1.0
embC 4241864 p.Leu668Met missense_variant 1.0
embB 4245557 c.-957G>A upstream_gene_variant 0.98
ethA 4327092 p.Ala128Pro missense_variant 1.0
gid 4408151 p.Leu18Val missense_variant 1.0