TB-Profiler result

Run: SRR7131018
Summary

Run ID: SRR7131018

Sample name:

Date: 04-04-2023 18:41:45

Number of reads: 1043698

Percentage reads mapped: 100.0

Strain: lineage4.3.1

Drug-resistance: Sensitive

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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
lineage4.3.1 Euro-American (LAM) LAM9 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
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
mshA 576108 p.Ala254Gly missense_variant 0.29
mshA 576482 p.Val379Leu missense_variant 0.23
ccsA 620257 p.Ile123Val missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775793 c.2688C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407442 c.-102T>C upstream_gene_variant 0.11
embR 1416190 c.1158C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.11
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.11
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.11
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.14
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.15
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.14
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.14
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.14
rrs 1472458 n.613A>G non_coding_transcript_exon_variant 0.11
rrs 1472605 n.760G>T non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.23
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.15
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.16
rrs 1472827 n.982G>C non_coding_transcript_exon_variant 0.11
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.11
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.19
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.24
rrl 1473704 n.47C>G non_coding_transcript_exon_variant 0.12
rrl 1473706 n.49A>T non_coding_transcript_exon_variant 0.12
rrl 1473930 n.273A>G non_coding_transcript_exon_variant 0.22
rrl 1473954 n.297A>G non_coding_transcript_exon_variant 0.22
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.15
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.15
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.14
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.17
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.17
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.17
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.29
rrl 1475637 n.1980T>C non_coding_transcript_exon_variant 0.17
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.25
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.23
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.23
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.21
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.4
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.35
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.29
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.24
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.19
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.19
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.18
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.17
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.17
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.17
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.17
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.18
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.18
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.17
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.17
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.17
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.2
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.28
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.28
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.31
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.35
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.35
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.33
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.33
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.33
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.33
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.53
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.53
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.5
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.44
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.44
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.29
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.29
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.29
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.28
rrl 1476504 n.2847T>C non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449369 p.Asn289Ser missense_variant 0.11
Rv3083 3449375 p.Leu291Pro missense_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240389 p.Asn176Ser missense_variant 0.11
embC 4241959 c.2097A>G synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0