TB-Profiler result

Run: ERR037513
Summary

Run ID: ERR037513

Sample name:

Date: 31-03-2023 08:34:48

Number of reads: 11869000

Percentage reads mapped: 83.88

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
ccsA 619745 c.-146A>C upstream_gene_variant 1.0
rpoB 762249 p.Leu815Val missense_variant 0.2
rpoC 762836 c.-534C>G upstream_gene_variant 0.32
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.24
fbiC 1303016 p.Val29Gly missense_variant 0.2
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.2
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.2
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.11
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.13
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.18
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.18
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.22
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.23
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.27
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.11
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.2
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.23
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.12
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.39
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.39
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.35
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.23
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.17
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.19
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.18
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.17
rrs 1473080 n.1235C>G non_coding_transcript_exon_variant 0.13
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.14
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.14
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.1
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.1
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.23
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.14
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.12
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.16
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.16
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.15
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.13
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.13
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.14
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.12
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.11
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.11
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.12
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.13
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.14
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 0.11
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.14
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.16
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.17
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.23
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.1
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.23
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.34
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.13
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.23
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.41
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.41
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.56
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.21
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.37
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.28
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.15
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.38
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.15
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.3
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.18
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.1
inhA 1674892 p.Asn231Asp missense_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.33
PPE35 2170744 c.-133delA upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.26
eis 2715586 c.-254G>C upstream_gene_variant 0.43
pepQ 2859381 c.1038C>G synonymous_variant 0.19
ribD 2987307 p.Ala157Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.23
Rv2752c 3066235 c.-44C>T upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086776 c.-44G>A 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
fprA 3475280 p.Val425Gly missense_variant 0.41
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.25
fbiB 3642734 c.1200G>C synonymous_variant 0.21
fbiB 3642772 p.Asp413Ala missense_variant 0.17
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 0.17
clpC1 4039932 p.Gly258Val missense_variant 0.29
embC 4239842 c.-21C>A upstream_gene_variant 0.14
embC 4242425 p.Arg855Gly missense_variant 0.19
embC 4242476 p.Pro872Ala missense_variant 0.3
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.34
ethA 4327672 c.-199G>A upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0