TB-Profiler result

Run: ERR4819952
Summary

Run ID: ERR4819952

Sample name:

Date: 01-04-2023 16:24:01

Number of reads: 987386

Percentage reads mapped: 99.21

Strain: La3

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
La3 M.orygis None None 0.99
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 5516 p.Ile93Val missense_variant 1.0
gyrB 6109 c.870G>A synonymous_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrB 6717 p.Ile493Thr missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8930 c.1629C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490661 c.-122_-121insGCGAGC upstream_gene_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
fgd1 491749 p.Leu323Phe missense_variant 0.95
ccsA 620096 p.His69Leu missense_variant 0.12
ccsA 620653 c.767delG frameshift_variant 0.12
rpoB 762352 c.2557_2562dupGACGAG conservative_inframe_insertion 0.94
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778086 c.394dupG frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.1
rrs 1471938 n.93T>A non_coding_transcript_exon_variant 0.11
rrs 1471943 n.98T>C non_coding_transcript_exon_variant 0.12
rrs 1471978 n.133C>T non_coding_transcript_exon_variant 0.15
rrs 1471979 n.134T>C non_coding_transcript_exon_variant 0.15
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.17
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.17
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.4
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.4
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.4
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.4
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.4
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.4
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.4
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.33
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.29
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.29
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.33
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.33
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.18
rrl 1473757 n.100T>G non_coding_transcript_exon_variant 0.18
rrl 1473758 n.101G>A non_coding_transcript_exon_variant 0.18
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.2
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.25
rrl 1473814 n.157A>G non_coding_transcript_exon_variant 0.25
rrl 1473815 n.158T>C non_coding_transcript_exon_variant 0.25
rrl 1473822 n.165A>G non_coding_transcript_exon_variant 0.25
rrl 1473830 n.173T>C non_coding_transcript_exon_variant 0.5
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.5
rrl 1473833 n.176_177insT non_coding_transcript_exon_variant 0.5
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.5
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.29
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.25
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.25
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.14
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.14
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.13
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.12
rrl 1476664 n.3007T>G non_coding_transcript_exon_variant 1.0
inhA 1673680 c.-522C>G upstream_gene_variant 1.0
rpsA 1834363 c.822G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154707 p.Val469Leu missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169279 c.1312_1333delAACAATGGTGTCTTTTACCGTG frameshift_variant 0.9
PPE35 2170669 c.-57G>A upstream_gene_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289978 c.-737T>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726378 c.186T>A synonymous_variant 1.0
folC 2746391 p.Val403Ala missense_variant 1.0
Rv2752c 3067009 c.-818A>G upstream_gene_variant 1.0
thyX 3067345 p.Ser201Gly missense_variant 0.15
thyX 3067812 p.Gln45Arg missense_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448594 p.Thr31Ala missense_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474992 p.Thr329Arg missense_variant 1.0
fprA 3475113 c.1107G>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475323 c.1317T>C synonymous_variant 1.0
Rv3236c 3612694 c.423T>C synonymous_variant 1.0
fbiB 3641584 p.Val17Ala missense_variant 1.0
clpC1 4039853 c.852G>A synonymous_variant 1.0
clpC1 4040560 c.145C>T synonymous_variant 1.0
embC 4239918 p.Val19Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244154 p.Thr308Ala missense_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326204 p.Ser424Ala missense_variant 1.0
ethA 4327042 p.Asp144Asn missense_variant 1.0
ethA 4328211 c.-738A>G upstream_gene_variant 1.0
whiB6 4338269 p.Gly85Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0