TB-Profiler result

Run: ERR4820580
Summary

Run ID: ERR4820580

Sample name:

Date: 01-04-2023 16:45:30

Number of reads: 52752

Percentage reads mapped: 54.04

Strain: lineage4.9;lineage4.6.2

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
lineage4.6.2 Euro-American T;LAM RD726 0.07
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 8990 c.1689C>G synonymous_variant 1.0
gyrA 8993 c.1692C>T synonymous_variant 1.0
gyrA 8996 c.1695T>C synonymous_variant 1.0
gyrA 8998 p.Leu566Trp missense_variant 1.0
gyrA 9018 p.Gln573Lys missense_variant 1.0
gyrA 9023 c.1722A>T synonymous_variant 1.0
gyrA 9026 c.1725G>C synonymous_variant 1.0
gyrA 9029 c.1728T>C synonymous_variant 1.0
gyrA 9032 c.1731T>C synonymous_variant 1.0
gyrA 9035 c.1734G>C synonymous_variant 1.0
gyrA 9044 c.1743C>G synonymous_variant 1.0
gyrA 9051 c.1750T>C synonymous_variant 1.0
gyrA 9063 p.Ser588Ala missense_variant 1.0
gyrA 9068 c.1767G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762507 p.Leu901Met missense_variant 1.0
rpoB 762510 p.Ala902Pro missense_variant 1.0
rpoC 762533 c.-837T>C upstream_gene_variant 1.0
rpoC 762536 c.-834T>C upstream_gene_variant 1.0
rpoC 762537 c.-833T>C upstream_gene_variant 1.0
rpoC 762551 c.-819C>T upstream_gene_variant 1.0
rpoB 763093 p.Val1096Ala missense_variant 1.0
rpoC 763618 c.249C>T synonymous_variant 1.0
rpoC 763633 c.264T>C synonymous_variant 1.0
rpoC 763660 c.291T>G synonymous_variant 1.0
rpoC 763666 c.297G>C synonymous_variant 1.0
rpoC 763669 c.300C>G synonymous_variant 1.0
rpoC 763675 c.306C>G synonymous_variant 1.0
rpoC 764509 c.1140G>T synonymous_variant 0.67
rpoC 764521 c.1152T>C synonymous_variant 1.0
rpoC 764539 c.1170C>G synonymous_variant 1.0
rpoC 764542 c.1173C>G synonymous_variant 1.0
rpoC 764548 c.1179G>C synonymous_variant 1.0
rplC 800967 c.159C>T synonymous_variant 0.67
rplC 800970 c.162T>C synonymous_variant 0.67
rplC 800976 c.168G>A synonymous_variant 0.67
rplC 801004 p.Leu66Val missense_variant 0.67
rplC 801009 c.201A>C synonymous_variant 0.67
rplC 801019 p.Thr71Ala missense_variant 1.0
rplC 801024 c.216C>G synonymous_variant 1.0
rplC 801027 c.219C>G synonymous_variant 1.0
rplC 801030 c.222C>A synonymous_variant 1.0
rplC 801039 c.231A>G synonymous_variant 1.0
rplC 801045 c.237A>G synonymous_variant 1.0
rplC 801046 p.Tyr80His missense_variant 1.0
rplC 801054 c.246G>C synonymous_variant 1.0
rplC 801058 c.250C>T synonymous_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 1.0
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 1.0
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 1.0
rrs 1472623 n.778A>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 1472707 n.862A>T non_coding_transcript_exon_variant 1.0
rrs 1472954 n.1110delC non_coding_transcript_exon_variant 1.0
rrs 1472958 n.1113_1114insC non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 1.0
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 1.0
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473226 n.1381C>G non_coding_transcript_exon_variant 1.0
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474798 n.1141C>G non_coding_transcript_exon_variant 1.0
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 1.0
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102213 p.Ser277Leu missense_variant 1.0
ahpC 2726533 p.Ile114Thr missense_variant 0.67
ahpC 2726540 c.348C>A synonymous_variant 0.67
ribD 2987220 p.Arg128Cys missense_variant 0.5
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
fbiB 3641898 p.Pro122Thr missense_variant 1.0
rpoA 3878698 c.-191A>G upstream_gene_variant 1.0
rpoA 3878701 c.-194C>G upstream_gene_variant 1.0
clpC1 4039649 c.1056G>T synonymous_variant 0.5
clpC1 4039652 c.1053G>T synonymous_variant 0.5
clpC1 4039661 c.1044T>C synonymous_variant 0.5
clpC1 4039682 c.1023C>G synonymous_variant 0.5
embB 4247694 p.Ala394Glu missense_variant 0.67
aftB 4267799 c.1037delT frameshift_variant 1.0