TB-Profiler result

Run: ERR176801
Summary

Run ID: ERR176801

Sample name:

Date: 31-03-2023 15:13:43

Number of reads: 2491112

Percentage reads mapped: 93.24

Strain: lineage4.3.4.2.1

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 0.96
lineage4.3.4 Euro-American (LAM) LAM RD174 0.98
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.98
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 0.98
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
gyrB 6140 p.Val301Leu missense_variant 0.97
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 764995 c.1626C>G synonymous_variant 0.98
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 1472708 n.863T>A non_coding_transcript_exon_variant 0.18
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.29
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.29
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.3
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.27
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.27
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.19
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.1
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.11
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.11
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.1
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.1
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.16
rrl 1475530 n.1873C>T non_coding_transcript_exon_variant 0.89
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.15
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.16
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.16
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.16
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.19
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.18
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.18
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.16
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.15
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.14
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.17
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.19
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.17
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>A non_coding_transcript_exon_variant 0.17
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.18
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.19
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.19
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.23
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.27
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.27
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.27
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.27
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.35
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.37
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.52
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.56
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.55
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.53
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.32
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.33
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.27
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.25
PPE35 2169320 p.Leu431Phe missense_variant 0.26
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 0.96
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.26
fbiD 3339273 c.156T>G synonymous_variant 0.34
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.97
fbiB 3642772 p.Asp413Ala missense_variant 0.26
alr 3840719 c.702A>G synonymous_variant 0.96
clpC1 4038287 c.2418C>T synonymous_variant 0.98
clpC1 4038857 c.1848C>A synonymous_variant 0.21
embC 4239842 c.-21C>A upstream_gene_variant 0.22
embC 4242425 p.Arg855Gly missense_variant 0.19
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 0.97