TB-Profiler result

Run: ERR4822262
Summary

Run ID: ERR4822262

Sample name:

Date: 01-04-2023 17:43:45

Number of reads: 1146752

Percentage reads mapped: 98.74

Strain: La3;La1.8.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 0.83
La1 M.bovis None None 0.11
La1.8 M.bovis None None 0.05
La1.8.1 M.bovis None None 0.16
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 0.81
gyrB 5752 c.513G>A synonymous_variant 0.17
gyrB 6109 c.870G>A synonymous_variant 0.88
gyrA 6406 c.-896C>T upstream_gene_variant 0.21
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrB 6717 p.Ile493Thr missense_variant 0.81
gyrA 7331 c.30C>T synonymous_variant 0.59
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 0.33
gyrA 8619 p.Leu440Val missense_variant 0.59
gyrA 8930 c.1629C>T synonymous_variant 0.96
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9461 c.2160C>T synonymous_variant 0.87
fgd1 490661 c.-122_-121insGCGAGC upstream_gene_variant 0.65
fgd1 490921 p.Gln47Glu missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
fgd1 491749 p.Leu323Phe missense_variant 0.88
rpoB 762352 c.2557_2562dupGACGAG conservative_inframe_insertion 0.8
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775605 p.Arg959Pro missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.95
mmpL5 776665 p.Thr606Ala missense_variant 0.14
mmpL5 778086 c.394dupG frameshift_variant 0.83
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801062 p.Arg85Leu missense_variant 0.14
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475539 n.1882A>G non_coding_transcript_exon_variant 0.83
rrl 1476664 n.3007T>G non_coding_transcript_exon_variant 0.84
inhA 1673680 c.-522C>G upstream_gene_variant 0.88
inhA 1674499 p.Gln100Lys missense_variant 0.27
rpsA 1834363 c.822G>A synonymous_variant 0.74
rpsA 1834859 p.Ala440Thr missense_variant 0.35
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154707 p.Val469Leu missense_variant 0.84
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 0.29
PPE35 2168319 p.Thr765Ile missense_variant 0.25
PPE35 2168814 c.1798dupA frameshift_variant 0.19
PPE35 2169279 c.1312_1333delAACAATGGTGTCTTTTACCGTG frameshift_variant 0.56
PPE35 2170669 c.-57G>A upstream_gene_variant 0.89
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
kasA 2519220 p.Pro369Gln missense_variant 0.2
eis 2715125 p.Thr70Ala missense_variant 0.17
ahpC 2726378 c.186T>A synonymous_variant 0.77
folC 2746391 p.Val403Ala missense_variant 0.89
Rv2752c 3067009 c.-818A>G upstream_gene_variant 0.67
thyX 3067812 p.Gln45Arg missense_variant 0.86
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 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_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 0.74
Rv3236c 3612694 c.423T>C synonymous_variant 0.86
fbiB 3641584 p.Val17Ala missense_variant 0.76
clpC1 4038403 c.2302T>C synonymous_variant 0.2
clpC1 4039853 c.852G>A synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241165 p.Thr435Pro missense_variant 0.12
embC 4242642 p.Arg927His missense_variant 0.13
embA 4242970 c.-263C>T upstream_gene_variant 0.32
embA 4244154 p.Thr308Ala missense_variant 0.82
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 0.18
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247003 p.Leu164Ile missense_variant 0.25
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267740 p.Glu366Gly missense_variant 0.14
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 4326024 p.Pro484Ser missense_variant 0.2
ethA 4327042 p.Asp144Asn missense_variant 0.9
ethA 4328211 c.-738A>G upstream_gene_variant 0.86
whiB6 4338269 p.Gly85Ser missense_variant 0.95
whiB6 4338516 c.6A>C synonymous_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.95
gid 4407697 p.Asp169Gly missense_variant 0.16