TB-Profiler result

Run: ERR4450956
Summary

Run ID: ERR4450956

Sample name:

Date: 01-04-2023 06:02:10

Number of reads: 2552342

Percentage reads mapped: 80.85

Strain: La1.7.1

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
La1.7 M.bovis None None 1.0
La1.7.1 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.46 streptomycin
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 8285 c.984C>T synonymous_variant 1.0
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
mshA 576108 p.Ala254Gly missense_variant 0.15
mshA 576482 p.Val379Leu missense_variant 0.19
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
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.34
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.34
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.32
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.21
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.24
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.33
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.4
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.43
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.55
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.57
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.73
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.69
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.69
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.72
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.71
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.66
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.21
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.16
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.31
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.33
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.51
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.51
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.58
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.49
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.42
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.17
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.25
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.24
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.22
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.22
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.23
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.25
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.26
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.15
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.19
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.24
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.26
rrl 1475574 n.1917C>A non_coding_transcript_exon_variant 0.16
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.16
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.26
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.26
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.34
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.37
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.21
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.15
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.11
rrl 1476126 n.2469C>T non_coding_transcript_exon_variant 0.11
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.11
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.12
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.13
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.13
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.15
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.15
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.14
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.14
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.13
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.21
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.46
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.45
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.45
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.44
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.46
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.46
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.44
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.42
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.43
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.49
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
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 2167926 p.Leu896Ser missense_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 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_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 3448783 p.Val94Ile missense_variant 1.0
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
fbiB 3642478 p.Asp315Ala missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
ddn 3986756 c.-88C>A upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4242393 p.Asp844Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
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 4246563 c.55delG frameshift_variant 0.13
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0