TB-Profiler result

Run: ERR4815910
Summary

Run ID: ERR4815910

Sample name:

Date: 01-04-2023 14:08:07

Number of reads: 1918333

Percentage reads mapped: 85.33

Strain: lineage4.1.2.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.27 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.19 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.2 kanamycin, capreomycin, aminoglycosides, amikacin
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761051 c.1245G>C synonymous_variant 0.12
rpoB 761057 c.1251G>C synonymous_variant 0.12
rpoB 761084 c.1278C>A synonymous_variant 0.17
rpoB 761088 c.1282_1283delAGinsTC synonymous_variant 0.17
rpoB 762051 p.His749Tyr missense_variant 0.14
rpoB 762057 p.Ile751Val missense_variant 0.13
rpoB 762062 c.2256T>C synonymous_variant 0.14
rpoB 762065 c.2259T>C synonymous_variant 0.14
rpoB 762071 p.Asp755Glu missense_variant 0.15
rpoB 762080 c.2274G>C synonymous_variant 0.15
rpoB 762085 p.Ala760Glu missense_variant 0.22
rpoB 762089 c.2283G>A synonymous_variant 0.12
rpoB 762110 c.2304G>C synonymous_variant 0.14
rpoB 762879 p.Met1025Leu missense_variant 0.11
rpoC 763699 c.330G>T synonymous_variant 0.14
rpoC 763708 c.339G>C synonymous_variant 0.16
rpoC 763714 c.345G>C synonymous_variant 0.15
rpoC 763717 c.348T>C synonymous_variant 0.16
rpoC 763718 p.Leu117Val missense_variant 0.13
rpoC 763723 c.354G>C synonymous_variant 0.16
rpoC 763724 p.Asp119Asn missense_variant 0.16
rpoC 763729 c.360G>C synonymous_variant 0.17
rpoC 763732 c.363C>G synonymous_variant 0.16
rpoC 763735 c.366G>C synonymous_variant 0.16
rpoC 763744 c.375G>C synonymous_variant 0.13
rpoC 763751 p.Ile128Val missense_variant 0.13
rpoC 764521 c.1152T>C synonymous_variant 0.11
rpoC 764530 c.1161C>T synonymous_variant 0.13
rpoC 764536 c.1167G>C synonymous_variant 0.15
rpoC 764543 p.Thr392Ala missense_variant 0.15
rpoC 764548 c.1179G>C synonymous_variant 0.14
rpoC 764578 c.1209C>G synonymous_variant 0.12
rpoC 764581 c.1212T>C synonymous_variant 0.12
rpoC 764602 c.1233C>T synonymous_variant 0.2
rpoC 764605 c.1236G>T synonymous_variant 0.21
rpoC 764611 c.1242G>T synonymous_variant 0.24
rpoC 764647 c.1278C>T synonymous_variant 0.15
rpoC 764650 c.1281G>T synonymous_variant 0.17
rpoC 764653 c.1284G>C synonymous_variant 0.18
rpoC 764656 c.1287C>G synonymous_variant 0.11
rpoC 764662 c.1293G>C synonymous_variant 0.17
rpoC 764677 c.1308C>G synonymous_variant 0.12
rpoC 764678 p.Lys437Gln missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781760 c.201T>C synonymous_variant 0.11
rpsL 781766 c.207C>T synonymous_variant 0.12
rpsL 781802 c.243G>C synonymous_variant 0.12
rpsL 781832 c.273T>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.4
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.5
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.18
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.21
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.71
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.15
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.15
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.49
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.49
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.49
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.96
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.51
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.46
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.46
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.43
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.91
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.33
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.38
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.4
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.67
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.67
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 1.0
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 1.0
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 1.0
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 1.0
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 1.0
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 1.0
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 1.0
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 1.0
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.29
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.2
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.36
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.36
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.33
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.39
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.22
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.23
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.44
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.2
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.36
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.46
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.46
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.12
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.45
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.45
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 1.0
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.57
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.2
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.33
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.27
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.61
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.27
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.31
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.29
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.32
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.34
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.68
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.2
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.8
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.33
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.33
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.8
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.89
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.58
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.28
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.58
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.91
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.86
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.81
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.9
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.53
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.51
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.92
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.29
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.28
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.98
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 1.0
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 1.0
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.21
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.19
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 1.0
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.97
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 1.0
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.97
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 1.0
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.94
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.94
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.67
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.9
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.3
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.31
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.93
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.9
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.45
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.49
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.52
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.82
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.87
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.24
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.68
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.54
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.5
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.22
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.19
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.42
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.5
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.57
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.3
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.76
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 1.0
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 1.0
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.86
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.86
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.86
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.86
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.86
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.88
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.62
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.25
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.25
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.88
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.25
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.25
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.62
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.4
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.4
rrl 1474634 n.977T>G non_coding_transcript_exon_variant 0.5
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.6
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.6
rrl 1474658 n.1001A>G non_coding_transcript_exon_variant 0.4
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.5
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.5
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.5
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.5
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 1.0
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.75
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.75
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.57
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.6
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.6
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.33
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.8
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.18
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.67
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.18
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.67
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.67
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.5
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.67
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.67
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.67
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476164 n.2507A>T non_coding_transcript_exon_variant 0.62
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.89
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 1.0
rrl 1476194 n.2537A>T non_coding_transcript_exon_variant 1.0
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 1.0
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.4
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.9
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.6
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.78
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.78
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 1.0
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 1.0
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 1.0
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 1.0
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.36
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.92
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.91
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.9
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.7
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.81
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.92
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.77
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.83
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.29
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.67
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.8
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.8
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.5
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.6
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.8
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.8
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.5
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 1.0
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 1.0
rrl 1476600 n.2943A>C non_coding_transcript_exon_variant 1.0
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.67
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.67
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.67
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.67
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.67
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.67
rrl 1476633 n.2976A>G non_coding_transcript_exon_variant 0.67
rpsA 1834195 c.654G>C synonymous_variant 0.22
rpsA 1834228 c.687C>T synonymous_variant 0.14
rpsA 1834231 c.690T>C synonymous_variant 0.14
rpsA 1834234 c.693G>C synonymous_variant 0.28
rpsA 1834240 c.699T>C synonymous_variant 0.25
rpsA 1834246 c.705G>T synonymous_variant 0.3
rpsA 1834249 c.708T>C synonymous_variant 0.32
rpsA 1834258 c.717G>A synonymous_variant 0.21
rpsA 1834261 c.720A>G synonymous_variant 0.33
rpsA 1834264 c.723G>C synonymous_variant 0.33
rpsA 1834294 c.753G>C synonymous_variant 0.17
rpsA 1834298 p.Gln253Glu missense_variant 0.17
rpsA 1834306 c.765T>C synonymous_variant 0.16
rpsA 1834307 p.Asp256Gln missense_variant 0.16
rpsA 1834312 c.771G>A synonymous_variant 0.15
rpsA 1834327 c.786G>T synonymous_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222359 p.Leu269Pro missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338272 c.249dupA frameshift_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0