TB-Profiler result

Run: ERR216975
Summary

Run ID: ERR216975

Sample name:

Date: 31-03-2023 15:57:21

Number of reads: 1175522

Percentage reads mapped: 98.76

Strain: lineage4.9.1

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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
lineage4.9.1 Euro-American (H37Rv-like) T1 None 0.98
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 5337 p.Tyr33Cys missense_variant 0.11
gyrB 5429 p.Thr64Ser missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8978 c.1677C>T synonymous_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.4
rpoB 761581 p.Glu592Gly missense_variant 0.14
rpoB 762622 p.Lys939Arg missense_variant 0.1
rpoC 767286 p.Pro1306Leu missense_variant 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801330 c.522G>A synonymous_variant 0.14
rplC 801433 p.Arg209Gly missense_variant 0.14
fbiC 1304159 p.Val410Gly missense_variant 0.36
fbiC 1305319 p.Gln797Lys missense_variant 0.15
Rv1258c 1406953 p.Glu130* stop_gained 0.13
Rv1258c 1406987 c.354G>A synonymous_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472556 n.711C>T non_coding_transcript_exon_variant 0.25
rrl 1475575 n.1918C>T non_coding_transcript_exon_variant 0.13
rrl 1475601 n.1944C>T non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918398 c.459C>A synonymous_variant 0.15
tlyA 1918578 c.639G>A synonymous_variant 0.17
PPE35 2169866 c.747G>C synonymous_variant 0.32
Rv1979c 2223145 p.Arg7Lys missense_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
pncA 2289448 c.-207G>A upstream_gene_variant 1.0
kasA 2519332 c.1218C>A synonymous_variant 0.22
ahpC 2726338 p.Val49Gly missense_variant 0.25
pepQ 2859835 p.Ala195Asp missense_variant 0.13
ribD 2987323 p.Val162Gly missense_variant 0.29
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 1.0
fbiD 3339385 p.Asp90Asn missense_variant 0.94
Rv3083 3449299 p.Arg266Gly missense_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.25
panD 4044112 p.Thr57Ile missense_variant 0.12
embB 4246052 c.-462C>T upstream_gene_variant 0.12
embB 4246887 p.Val125Ala missense_variant 0.11
embB 4248224 p.Ala571Pro missense_variant 0.13
embB 4248810 p.Pro766Arg missense_variant 0.12
aftB 4267538 c.1299G>A synonymous_variant 0.18
aftB 4268036 p.Trp267Cys missense_variant 0.14
ubiA 4269259 p.Arg192His missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408339 c.-137G>A upstream_gene_variant 0.11
gid 4408352 c.-150C>G upstream_gene_variant 0.1