TB-Profiler result

Run: SRR6045263
Summary

Run ID: SRR6045263

Sample name:

Date: 04-04-2023 11:55:43

Number of reads: 3249

Percentage reads mapped: 0.45

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 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
rpoC 762929 c.-441G>C upstream_gene_variant 1.0
rpoC 762959 c.-411G>C upstream_gene_variant 1.0
rpoC 762962 c.-408C>T upstream_gene_variant 1.0
rpoC 762989 c.-381G>C upstream_gene_variant 1.0
rpoC 762995 c.-375G>T upstream_gene_variant 1.0
rpoC 763528 c.159G>A synonymous_variant 1.0
rpoC 763534 c.165T>C synonymous_variant 1.0
rpoC 763537 c.168C>G synonymous_variant 1.0
rpoC 763546 c.177A>G synonymous_variant 1.0
rpoC 763570 c.201G>C synonymous_variant 1.0
rpoC 763573 c.204G>C synonymous_variant 0.5
rpoC 763589 p.Ile74Val missense_variant 0.5
rpoC 763609 c.240C>G synonymous_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.67
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.4
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.4
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 1.0
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 1.0
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 1.0
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 1.0
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 1.0
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 1.0
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 1.0
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 1.0
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 1.0
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 1.0
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 1.0
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.67
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.67
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.67
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.67
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.67
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.67
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.67
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.67
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474202 n.545T>G non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>G non_coding_transcript_exon_variant 1.0
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 1.0
rrl 1474752 n.1096delA non_coding_transcript_exon_variant 1.0
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 1.0
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 1.0
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 1.0
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 1.0
rrl 1474799 n.1143delT non_coding_transcript_exon_variant 1.0
rrl 1474803 n.1146_1147insA non_coding_transcript_exon_variant 1.0
rrl 1474806 n.1149A>C non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 1.0
rrl 1474853 n.1196A>G non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 1.0
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 1.0
rrl 1475747 n.2090A>G non_coding_transcript_exon_variant 1.0
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 1.0
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 1.0
rrl 1475767 n.2110G>T non_coding_transcript_exon_variant 1.0
rrl 1475771 n.2114_2115insTGCGT non_coding_transcript_exon_variant 1.0
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 1.0
rrl 1475781 n.2124T>C non_coding_transcript_exon_variant 1.0
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 1.0
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 1.0
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 1.0
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.6
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.6
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 1.0
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 1.0
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 1.0
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 1.0
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 1.0
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 1.0
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 1.0
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 1.0
rrl 1475991 n.2334T>A non_coding_transcript_exon_variant 1.0
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 1.0
rrl 1475996 n.2339T>G non_coding_transcript_exon_variant 1.0
rpsA 1833733 c.192C>G synonymous_variant 1.0
rpsA 1833928 c.387G>C synonymous_variant 1.0
rpsA 1833949 c.408T>C synonymous_variant 1.0
rpsA 1833970 c.429G>C synonymous_variant 1.0
rpsA 1833979 c.438T>C synonymous_variant 1.0
rpsA 1833991 c.450C>A synonymous_variant 1.0
rpsA 1834000 c.459G>C synonymous_variant 1.0
rpsA 1834009 c.468C>T synonymous_variant 1.0
rpsA 1834012 c.471G>T synonymous_variant 1.0
rpsA 1834015 c.474G>C synonymous_variant 1.0
rpsA 1834021 c.480C>T synonymous_variant 1.0
rpsA 1834030 c.489C>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
rpoA 3877737 c.771G>C synonymous_variant 1.0
rpoA 3877743 c.765T>C synonymous_variant 1.0
rpoA 3877752 p.Asp252Glu missense_variant 1.0
rpoA 3877758 c.750G>C synonymous_variant 1.0
rpoA 3877764 c.744C>G synonymous_variant 1.0
rpoA 3877770 c.738A>G synonymous_variant 1.0
rpoA 3877773 c.735G>C synonymous_variant 1.0
rpoA 3877782 c.726T>C synonymous_variant 1.0
rpoA 3877785 c.723C>A synonymous_variant 1.0
rpoA 3877815 c.693C>T synonymous_variant 1.0
rpoA 3877827 c.681C>T synonymous_variant 1.0
rpoA 3877836 c.672A>G synonymous_variant 1.0
rpoA 3877839 c.669G>C synonymous_variant 1.0
rpoA 3877848 c.660C>G synonymous_variant 1.0
clpC1 4039586 c.1119G>C synonymous_variant 1.0
clpC1 4039610 c.1095G>C synonymous_variant 1.0
clpC1 4039616 c.1089G>C synonymous_variant 1.0
clpC1 4039622 c.1083C>T synonymous_variant 1.0
clpC1 4039628 c.1077C>G synonymous_variant 1.0
clpC1 4039640 c.1065C>G synonymous_variant 1.0
clpC1 4039646 c.1059G>A synonymous_variant 1.0
clpC1 4039649 c.1056G>T synonymous_variant 1.0
clpC1 4039652 c.1053G>C synonymous_variant 1.0