TB-Profiler result

Run: SRR6981918
Summary

Run ID: SRR6981918

Sample name:

Date: 04-04-2023 18:21:48

Number of reads: 204635

Percentage reads mapped: 23.5

Strain: lineage4.4.1

Drug-resistance: Sensitive

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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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4.1 Euro-American (S-type) S;T 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
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 5873 p.Arg212Gly missense_variant 0.17
gyrB 5937 p.Ala233Glu missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7825 p.Ala175Val missense_variant 0.25
gyrA 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759760 c.-47C>A upstream_gene_variant 0.14
rpoB 761338 p.Arg511His missense_variant 0.15
rpoB 762308 c.2502G>A synonymous_variant 0.18
rpoB 762373 p.Pro856Leu missense_variant 0.2
rpoC 764413 c.1044C>A synonymous_variant 0.13
rpoC 765661 c.2292T>C synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776981 c.1500G>A synonymous_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 0.88
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303356 c.426A>G synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472089 n.244C>T non_coding_transcript_exon_variant 0.17
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.36
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.47
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.41
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.41
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.44
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.43
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.45
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.44
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.35
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.33
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.33
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.32
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.24
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.22
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.22
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.5
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.48
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.48
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.48
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.64
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.64
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.65
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.65
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.71
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.79
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.82
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.83
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.83
rrs 1472669 n.824_825insTGG non_coding_transcript_exon_variant 0.85
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.8
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.8
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.8
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.8
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.78
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.78
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.79
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.81
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.81
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.81
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.81
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.81
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.8
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.75
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.73
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.6
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.58
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.58
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.53
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.58
rrs 1472861 n.1016G>C non_coding_transcript_exon_variant 0.58
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.69
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.74
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.73
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.73
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.73
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.75
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.75
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.75
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.75
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.75
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.75
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.73
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.73
rrs 1473001 n.1156G>T non_coding_transcript_exon_variant 0.71
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 0.71
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.71
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.73
rrs 1473009 n.1164T>A non_coding_transcript_exon_variant 0.73
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.73
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.77
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.68
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.6
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.54
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.54
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.28
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.26
rrs 1473089 n.1244A>C non_coding_transcript_exon_variant 0.21
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.15
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.21
rrl 1474832 n.1175A>G non_coding_transcript_exon_variant 0.22
rrl 1474977 n.1320T>C non_coding_transcript_exon_variant 0.22
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.14
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.14
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.2
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.2
rrl 1476135 n.2478T>C non_coding_transcript_exon_variant 0.21
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.31
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.34
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.45
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.52
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.55
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.55
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.55
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.53
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.53
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.56
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.56
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.56
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.56
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.6
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.68
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.73
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.78
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.81
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.8
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.81
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.81
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.81
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.81
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.82
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.82
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.82
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.84
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.84
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.84
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.89
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.89
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.91
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.91
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.93
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.92
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.92
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.92
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.9
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.9
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.9
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.89
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.87
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.87
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.87
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.86
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.86
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.86
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.86
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.86
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.86
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.88
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.88
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.88
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.9
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.89
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.91
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.86
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.81
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.79
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.77
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.73
rrl 1476621 n.2964C>T non_coding_transcript_exon_variant 0.64
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.64
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.62
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.62
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.62
rrl 1476657 n.3000G>T non_coding_transcript_exon_variant 0.4
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.33
rrl 1476664 n.3007T>C non_coding_transcript_exon_variant 0.29
rrl 1476665 n.3008T>C non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917992 p.Arg18Leu missense_variant 0.17
tlyA 1918490 p.Gln184Arg missense_variant 0.33
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066130 p.Leu21Pro missense_variant 0.55
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474488 p.Asp161Val missense_variant 0.18
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245544 p.Gly771Asp missense_variant 0.22
embB 4249196 p.Gly895Trp missense_variant 0.25
ethA 4326094 p.Asn460Lys missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408095 c.108G>T synonymous_variant 0.17