TB-Profiler result

Run: ERR2229502
Summary

Run ID: ERR2229502

Sample name:

Date: 31-03-2023 17:15:33

Number of reads: 141370

Percentage reads mapped: 98.09

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.86
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 7710 c.409T>C synonymous_variant 1.0
gyrA 8597 c.1296C>T synonymous_variant 0.33
gyrA 8963 c.1662C>T synonymous_variant 0.5
mmpL5 777197 c.1284C>T synonymous_variant 1.0
mmpL5 777630 p.Arg284His missense_variant 0.67
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471966 n.121G>T non_coding_transcript_exon_variant 0.33
rrs 1472962 n.1117T>C non_coding_transcript_exon_variant 0.5
rrl 1473460 n.-198G>T upstream_gene_variant 0.5
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474307 n.650G>T non_coding_transcript_exon_variant 0.5
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
PPE35 2167745 p.Thr956Arg missense_variant 0.57
PPE35 2167760 c.2853G>A synonymous_variant 0.57
PPE35 2167763 p.Ile950Val missense_variant 0.57
PPE35 2167784 c.2829C>T synonymous_variant 0.33
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169302 p.Met437Phe missense_variant 0.33
PPE35 2169351 p.Ala421Tyr missense_variant 0.29
PPE35 2169466 p.Asn383Asp missense_variant 0.17
PPE35 2169596 p.Phe339Gly missense_variant 0.22
PPE35 2169748 p.Ile289Phe missense_variant 0.18
PPE35 2169749 c.864A>C synonymous_variant 0.18
PPE35 2169937 c.675dupC frameshift_variant 0.29
PPE35 2170048 p.Leu189Val missense_variant 1.0
PPE35 2170053 p.Thr187Ser missense_variant 1.0
PPE35 2170147 p.Ser156Ala missense_variant 0.5
PPE35 2170157 p.Ala152Ser missense_variant 0.5
PPE35 2170177 c.436C>T synonymous_variant 0.5
PPE35 2170178 c.435T>A synonymous_variant 0.5
PPE35 2170187 p.Glu142Gln missense_variant 0.25
pncA 2288918 c.324A>T synonymous_variant 1.0
ribD 2986848 p.Ser4Thr missense_variant 0.67
Rv2752c 3065749 p.His148Leu missense_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.29
alr 3841589 c.-170delG upstream_gene_variant 0.2
alr 3841612 c.-193_-192insC upstream_gene_variant 0.22
embC 4240029 c.168_169insAGC conservative_inframe_insertion 0.5
embC 4241050 c.1188T>G synonymous_variant 0.67
embC 4241053 c.1191G>T synonymous_variant 0.67
embB 4246544 p.Thr11Pro missense_variant 0.6
embB 4247516 p.Asn335Asp missense_variant 1.0