TB-Profiler result

Run: ERR4818086
Summary

Run ID: ERR4818086

Sample name:

Date: 01-04-2023 15:21:38

Number of reads: 1308576

Percentage reads mapped: 97.81

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 7690 p.Thr130Asn missense_variant 0.15
gyrA 7971 p.Lys224Glu missense_variant 0.17
gyrA 8324 c.1023T>C synonymous_variant 0.12
gyrA 8339 c.1038A>G synonymous_variant 0.18
gyrA 8340 p.Ala347Ser missense_variant 0.18
gyrA 8372 c.1071G>C synonymous_variant 0.17
gyrA 8378 c.1077C>T synonymous_variant 0.13
gyrA 8382 p.Leu361Met missense_variant 0.13
rpoB 759832 p.Thr9Ile missense_variant 0.11
rpoB 760196 c.390C>G synonymous_variant 0.14
rpoB 760251 p.Gly149Cys missense_variant 0.12
rpoB 762693 p.Asn963Asp missense_variant 0.11
rpoC 764293 c.924G>C synonymous_variant 0.25
rpoC 764297 p.Met310Leu missense_variant 0.25
rpoC 764344 c.975C>T synonymous_variant 0.18
rpoC 764353 c.984G>T synonymous_variant 0.18
rpoC 764365 c.996C>T synonymous_variant 0.18
rpoC 764371 c.1002G>C synonymous_variant 0.17
rpoC 764380 c.1011G>C synonymous_variant 0.17
rpoC 764387 c.1018T>C synonymous_variant 0.17
rpoC 764713 c.1344G>T synonymous_variant 0.4
rpoC 764716 c.1347G>C synonymous_variant 0.29
rpoC 764746 c.1377G>T synonymous_variant 0.15
rpoC 764752 c.1383G>C synonymous_variant 0.14
rpoC 764758 c.1389C>G synonymous_variant 0.12
rpoC 764764 c.1395T>C synonymous_variant 0.12
rpoC 764797 c.1428G>C synonymous_variant 0.1
rpoC 766442 p.Thr1025Val missense_variant 0.15
rpoC 766456 c.3087C>T synonymous_variant 0.12
rpoC 766459 c.3090G>C synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779424 c.-944A>G upstream_gene_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417140 p.Ala70Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.29
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.33
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.33
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.33
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.43
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.2
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.2
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.22
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.22
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167845 p.Ser923Asn missense_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170559 c.54G>C synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
clpC1 4038857 c.1848C>T synonymous_variant 0.15
clpC1 4038878 c.1827A>G synonymous_variant 0.11
clpC1 4038890 c.1815G>A synonymous_variant 0.11
clpC1 4038896 c.1809C>T synonymous_variant 0.1
clpC1 4038905 c.1800A>C synonymous_variant 0.12
clpC1 4039670 c.1035G>C synonymous_variant 0.16
clpC1 4039673 c.1032G>C synonymous_variant 0.16
clpC1 4039682 c.1023C>G synonymous_variant 0.17
clpC1 4039694 c.1011G>C synonymous_variant 0.18
clpC1 4039724 c.981A>G synonymous_variant 0.14
clpC1 4039733 c.972G>C synonymous_variant 0.12
clpC1 4039778 c.927A>G synonymous_variant 0.17
clpC1 4039817 c.888A>T synonymous_variant 0.18
clpC1 4039820 c.885T>A synonymous_variant 0.18
clpC1 4039823 c.882T>C synonymous_variant 0.18
clpC1 4039829 c.874_876delTTGinsCTC synonymous_variant 0.22
clpC1 4039832 c.873C>G synonymous_variant 0.22
clpC1 4039850 c.855T>C synonymous_variant 0.18
clpC1 4039865 c.840T>C synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249656 p.Val1048Asp missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0