TB-Profiler result

Run: ERR3439443

Summary

Run ID: ERR3439443

Sample name:

Date: 01-04-2023 02:07:14

Number of reads: 560928

Percentage reads mapped: 42.12

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 8741 c.1440C>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
ccsA 620713 p.Tyr275His missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765278 p.Leu637Met missense_variant 0.14
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 1472101 n.256G>A non_coding_transcript_exon_variant 0.27
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.35
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.39
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.39
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.39
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.39
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.44
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.44
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.5
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.5
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.47
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.47
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.44
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.37
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.32
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.37
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.39
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.17
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.14
rrs 1472518 n.673G>C non_coding_transcript_exon_variant 0.14
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.14
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.15
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.15
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.15
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.15
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.15
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.15
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.17
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.15
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.17
rrs 1472582 n.737G>A non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.22
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472953 n.1108_1109insA non_coding_transcript_exon_variant 0.33
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.33
rrs 1472958 n.1114delT non_coding_transcript_exon_variant 0.33
rrs 1472970 n.1126delG non_coding_transcript_exon_variant 0.38
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.38
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.38
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.38
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.43
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.38
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.38
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.38
rrs 1472991 n.1146G>A non_coding_transcript_exon_variant 0.38
rrs 1472992 n.1147A>T non_coding_transcript_exon_variant 0.38
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.38
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.38
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.38
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.38
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.33
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.33
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.2
rrl 1474794 n.1137C>G non_coding_transcript_exon_variant 0.17
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.17
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.23
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.25
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.25
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.25
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.25
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.25
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.31
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.31
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.33
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.36
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.36
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.36
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.4
rrl 1474927 n.1271delC non_coding_transcript_exon_variant 0.29
rrl 1474931 n.1274G>A non_coding_transcript_exon_variant 0.25
rrl 1475750 n.2093A>C non_coding_transcript_exon_variant 1.0
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.5
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.6
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.67
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.87
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.8
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.79
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.73
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.73
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.73
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.73
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.73
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.73
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.73
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.73
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.73
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.73
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.76
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.76
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.82
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.82
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.85
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.87
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.86
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.83
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.79
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.81
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.85
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.82
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.73
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.6
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.6
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.6
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.6
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.6
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.6
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.55
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.55
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.55
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.55
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.55
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.67
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.75
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.67
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.67
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.6
rrl 1476595 n.2938C>T non_coding_transcript_exon_variant 0.4
rrl 1476602 n.2945G>A non_coding_transcript_exon_variant 0.22
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918594 p.Gly219Ser missense_variant 0.17
ndh 2102193 p.Arg284Trp missense_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 2221741 p.Gly475Asp missense_variant 0.12
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223227 c.-63A>G upstream_gene_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288687 p.Ser185Lys missense_variant 0.13
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518672 c.558G>T synonymous_variant 0.15
eis 2715125 p.Thr70Ala missense_variant 1.0
Rv2752c 3065988 p.Glu68Asp missense_variant 1.0
thyX 3068128 c.-183C>T upstream_gene_variant 0.12
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
whiB7 3568686 c.-7A>G upstream_gene_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 1.0
embC 4241987 p.Ala709Thr missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242802 c.-431G>A upstream_gene_variant 0.22
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 4247937 p.Thr475Met missense_variant 0.12
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