TB-Profiler result

Run: ERR4188352
Summary

Run ID: ERR4188352

Sample name:

Date: 01-04-2023 05:02:13

Number of reads: 480562

Percentage reads mapped: 39.97

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
gyrB 5764 c.526delG frameshift_variant 0.22
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrB 6963 p.Arg575His missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7514 c.213C>T synonymous_variant 0.18
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8481 c.1180C>T synonymous_variant 0.15
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 620687 p.Thr266Arg missense_variant 0.25
ccsA 620810 p.Leu307Gln missense_variant 0.18
rpoB 761462 c.1656C>A synonymous_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
rplC 801232 p.Gln142Lys missense_variant 0.33
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1303084 p.Gly52Ser missense_variant 0.18
Rv1258c 1407025 c.316C>T synonymous_variant 0.14
atpE 1461023 c.-22A>G upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.8
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.91
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.91
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.91
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.9
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 1.0
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 1.0
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 1.0
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 1.0
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 1.0
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 1.0
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 1.0
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
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 1472400 n.555C>T 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 1.0
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 1.0
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 1.0
rrs 1472669 n.824_825insTGG non_coding_transcript_exon_variant 1.0
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 1.0
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 1.0
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 1.0
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 1.0
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 1.0
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 1.0
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 1.0
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 1.0
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 1.0
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 1.0
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.92
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.92
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.92
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.92
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.92
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.92
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.92
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.92
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.92
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.92
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.92
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.92
rrs 1473001 n.1156G>T non_coding_transcript_exon_variant 0.92
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 0.92
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.92
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.92
rrs 1473009 n.1164T>A non_coding_transcript_exon_variant 0.92
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.92
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.92
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.89
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.88
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.8
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.67
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.67
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 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 1.0
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 1.0
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 1.0
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 1.0
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 1.0
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 1.0
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 1.0
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 1.0
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 1.0
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 1.0
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 1.0
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 1.0
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 1.0
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 1.0
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 1.0
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 1.0
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 1.0
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 1.0
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 1.0
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 1.0
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 1.0
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 1.0
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 1.0
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 1.0
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 1.0
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 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.98
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.97
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.97
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.97
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.97
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.97
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.97
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.97
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.97
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.97
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.97
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.97
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.97
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.96
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.96
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.96
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.88
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.88
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.85
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.75
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.4
rpsA 1834859 p.Ala440Thr missense_variant 1.0
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 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 2168306 p.Phe769Leu missense_variant 0.5
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 2714842 p.Arg164Gln missense_variant 0.25
eis 2715040 p.Arg98His missense_variant 0.13
eis 2715125 p.Thr70Ala missense_variant 1.0
thyA 3074405 p.Gly23Cys missense_variant 0.18
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
alr 3841349 c.72C>A synonymous_variant 0.25
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
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4245242 c.2010C>T synonymous_variant 0.29
embA 4245323 p.Met697Ile missense_variant 0.4
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 4267858 p.Ile327Val missense_variant 0.96
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