TB-Profiler result

Run: ERR1815548
Summary

Run ID: ERR1815548

Sample name:

Date: 31-03-2023 15:15:23

Number of reads: 5360585

Percentage reads mapped: 56.37

Strain: La1.8.1

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
La1.8 M.bovis None None 1.0
La1.8.1 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
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 575663 p.Gly106Arg missense_variant 1.0
rpoB 762138 c.2332C>T 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
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.25
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.28
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.32
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.47
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.53
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.53
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.54
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.41
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.28
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.26
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.25
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.23
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.13
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.21
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.17
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.51
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.65
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.65
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.68
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.69
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.72
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.72
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.36
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.29
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.28
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.16
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.49
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.53
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.75
rrs 1472754 n.909G>A non_coding_transcript_exon_variant 0.76
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.76
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.71
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.62
rrs 1472806 n.961A>T non_coding_transcript_exon_variant 0.58
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.22
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.11
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.11
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.15
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.28
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.28
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.27
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.27
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.26
rrs 1473080 n.1235C>A non_coding_transcript_exon_variant 0.17
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.16
rrs 1473084 n.1239T>A non_coding_transcript_exon_variant 0.16
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.1
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.15
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.15
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.15
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.16
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.25
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.33
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.34
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.29
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.26
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.26
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.26
rrl 1474920 n.1263G>T non_coding_transcript_exon_variant 0.17
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.18
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.11
rrl 1475687 n.2030C>T non_coding_transcript_exon_variant 0.13
rrl 1475688 n.2031G>C non_coding_transcript_exon_variant 0.12
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.12
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.12
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.12
rrl 1475722 n.2065G>A non_coding_transcript_exon_variant 0.13
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.14
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.35
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.35
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.36
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.36
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.33
rrl 1475866 n.2209T>C non_coding_transcript_exon_variant 0.2
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.18
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.19
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.21
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.21
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.2
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.54
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.62
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.62
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.68
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.7
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.74
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.73
rrl 1476391 n.2734C>T non_coding_transcript_exon_variant 0.74
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.77
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.79
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.8
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.81
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.7
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.44
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476704 n.3053delC non_coding_transcript_exon_variant 1.0
inhA 1674952 p.Pro251Ala missense_variant 0.15
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
PPE35 2169866 c.747G>C synonymous_variant 0.2
Rv1979c 2222308 p.Asp286Gly missense_variant 0.99
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 0.99
thyA 3073685 p.Val263Ile missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.34
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
rpoA 3878283 p.Glu75Asp missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.17
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
embB 4248314 p.Ala601Thr 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