TB-Profiler result

Run: ERR3439280
Summary

Run ID: ERR3439280

Sample name:

Date: 01-04-2023 02:01:13

Number of reads: 217680

Percentage reads mapped: 20.46

Strain: La1.8

Drug-resistance: Other

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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
La1 M.bovis None None 1.0
La1.8 M.bovis None 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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8048 c.747C>A synonymous_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 0.71
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9217 p.Asp639Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801454 p.Glu216Gln missense_variant 0.44
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.4
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.4
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 1.0
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 1.0
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.67
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.75
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.4
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.4
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.29
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.29
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.29
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.29
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.22
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.22
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.22
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.25
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.22
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.22
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.2
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.18
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.3
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.38
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.38
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.67
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.67
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.67
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.67
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.75
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.23
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.21
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.5
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.62
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.62
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.67
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.33
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.78
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.22
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.75
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.67
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.67
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.47
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.28
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.42
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.56
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.31
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.55
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.24
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.24
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.24
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.24
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.67
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.47
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.71
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.33
inhA 1673715 c.-487C>G upstream_gene_variant 0.6
inhA 1674470 p.Gly90Val missense_variant 0.17
inhA 1674560 p.Ile120Thr missense_variant 0.2
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102193 p.Arg284Trp missense_variant 0.4
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168319 p.Thr765Ile missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223129 p.His12Gln missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2715125 p.Thr70Ala missense_variant 1.0
Rv2752c 3065988 p.Glu68Asp missense_variant 0.33
thyA 3074117 c.354delG frameshift_variant 0.22
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
Rv3083 3449716 p.Tyr405Asp missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475367 p.Gly454Glu missense_variant 0.38
clpC1 4038403 c.2302T>C synonymous_variant 1.0
clpC1 4040213 c.492T>C synonymous_variant 0.33
panD 4044054 c.228G>A synonymous_variant 0.25
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240703 p.Leu281Met missense_variant 0.22
embC 4242642 p.Arg927His missense_variant 0.57
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267167 p.Gln557Pro missense_variant 0.83
aftB 4267858 p.Ile327Val 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 4326024 p.Pro484Ser missense_variant 0.5
ethR 4327807 p.Leu87Ile missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408305 c.-103C>T upstream_gene_variant 0.33