TB-Profiler result

Run: ERR4188330

Summary

Run ID: ERR4188330

Sample name:

Date: 01-04-2023 05:01:21

Number of reads: 234812

Percentage reads mapped: 18.38

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
La1.8 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
mshA 575296 c.-52C>T upstream_gene_variant 0.22
mshA 575668 c.321G>T synonymous_variant 0.22
mshA 576343 c.996C>A synonymous_variant 0.4
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val 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 1472094 n.249T>A non_coding_transcript_exon_variant 0.67
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.95
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.95
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.95
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.96
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.96
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.96
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.92
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.92
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.92
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.92
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.91
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.91
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.91
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.9
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.78
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.5
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.5
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.5
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.5
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.5
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 1.0
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 1.0
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 1.0
rrs 1472396 n.551A>T non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 1.0
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 1.0
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 1.0
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 1.0
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 1.0
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 1.0
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 1.0
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.96
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.95
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.95
rrs 1472669 n.824_825insTGG non_coding_transcript_exon_variant 0.94
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.94
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.94
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.94
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.94
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.94
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.94
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.94
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.94
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.94
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.94
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.94
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.94
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.96
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.96
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.96
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.96
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.95
rrs 1472973 n.1129_1130delAT non_coding_transcript_exon_variant 0.88
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.96
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.96
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.96
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.96
rrs 1473001 n.1156G>T non_coding_transcript_exon_variant 1.0
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 1.0
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 1.0
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 1.0
rrs 1473009 n.1164T>A non_coding_transcript_exon_variant 1.0
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 1.0
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 1.0
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 1.0
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 1.0
rrs 1473346 n.1501G>T non_coding_transcript_exon_variant 0.67
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 1.0
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 1.0
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.67
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.67
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.67
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 1.0
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 1.0
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 1.0
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 1.0
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 1.0
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 1.0
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 1.0
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 1.0
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.92
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.92
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.92
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.83
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.83
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.83
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.83
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.83
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.83
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.83
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.83
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.83
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.87
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.92
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.92
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.94
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.94
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.95
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.93
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.93
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.93
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.93
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.93
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.96
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.96
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.96
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.96
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.97
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 1.0
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 1.0
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.98
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 1.0
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 1.0
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 1.0
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.98
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.98
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.99
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.99
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.98
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.98
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.98
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.98
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.98
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.98
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.98
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.98
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.98
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.98
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.98
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.98
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 1.0
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 1.0
rrl 1476575 n.2918C>T non_coding_transcript_exon_variant 0.13
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 1.0
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 1.0
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 1.0
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 1.0
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 1.0
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 0.88
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102193 p.Arg284Trp missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2155503 c.609C>T 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
eis 2715125 p.Thr70Ala missense_variant 1.0
ribD 2987055 p.Leu73Met missense_variant 0.4
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 3449551 p.Ile350Leu missense_variant 0.33
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
alr 3841101 p.Ala107Val missense_variant 0.18
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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242680 p.Ala940Ser missense_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 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248527 p.Phe672Leu missense_variant 0.2
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 4327530 c.-57G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0