TB-Profiler result

Run: ERR176820
Summary

Run ID: ERR176820

Sample name:

Date: 31-03-2023 15:14:27

Number of reads: 3754549

Percentage reads mapped: 92.76

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 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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
gyrB 6140 p.Val301Leu missense_variant 1.0
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 0.99
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 1472102 n.257G>A non_coding_transcript_exon_variant 0.12
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.13
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.13
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.14
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.17
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.17
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.17
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.2
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.21
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.18
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.12
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.12
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.13
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.22
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.21
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.21
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.21
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.19
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.11
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.18
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.18
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.18
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.16
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.17
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.16
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.16
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.16
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.16
rrs 1473080 n.1235C>G non_coding_transcript_exon_variant 0.17
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.17
rrs 1473084 n.1239T>A non_coding_transcript_exon_variant 0.17
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.17
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.16
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.12
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.11
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.11
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.17
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.17
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.17
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.17
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.17
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.17
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.18
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.11
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.12
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.12
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.13
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.1
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.1
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.1
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.1
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.31
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.33
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.33
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.34
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.36
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.35
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.52
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.46
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.44
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.44
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.31
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.32
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.2
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.16
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.15
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.14
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.15
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.14
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.14
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.15
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.15
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.15
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.15
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.16
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.16
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 0.99
PPE35 2169317 c.1296C>T synonymous_variant 0.23
PPE35 2169320 p.Leu431Phe missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987307 p.Ala157Pro missense_variant 0.26
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.22
embC 4239842 c.-21C>A upstream_gene_variant 0.19
embC 4242425 p.Arg855Gly missense_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242921 p.Ala1020Val missense_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0