TB-Profiler result

Run: SRR5341375

Summary

Run ID: SRR5341375

Sample name:

Date: 04-04-2023 10:17:51

Number of reads: 6293

Percentage reads mapped: 0.45

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.98 streptomycin
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
rpoC 763486 c.117T>C synonymous_variant 1.0
rpoC 763492 c.123G>T synonymous_variant 1.0
rpoC 763528 c.159G>A synonymous_variant 1.0
rpoC 763546 c.177A>G synonymous_variant 1.0
rpoC 763549 c.180C>T synonymous_variant 1.0
rpoC 763558 c.189C>T synonymous_variant 1.0
rpoC 764485 c.1116G>C synonymous_variant 1.0
rpoC 764491 c.1122G>T synonymous_variant 1.0
rpoC 764497 c.1128A>G synonymous_variant 1.0
rpoC 764500 c.1131C>G synonymous_variant 1.0
rpoC 764701 c.1332C>G synonymous_variant 1.0
rpoC 764713 c.1344G>T synonymous_variant 1.0
rpoC 764716 c.1347G>C synonymous_variant 1.0
rpoC 764746 c.1377G>T synonymous_variant 1.0
rpoC 764752 c.1383G>C synonymous_variant 1.0
rpoC 764758 c.1389C>G synonymous_variant 1.0
rpoC 764764 c.1395T>C synonymous_variant 1.0
rpoC 766315 c.2946C>G synonymous_variant 1.0
rpoC 766345 c.2976T>C synonymous_variant 1.0
rpoC 766348 c.2979A>G synonymous_variant 1.0
rpoC 766363 c.2994G>C synonymous_variant 1.0
rpoC 766381 c.3012C>T synonymous_variant 1.0
rpoC 766384 c.3015A>G synonymous_variant 1.0
rpoC 766390 c.3021C>T synonymous_variant 1.0
rpoC 767008 c.3639G>A synonymous_variant 1.0
rpoC 767020 c.3651C>G synonymous_variant 1.0
rpoC 767197 c.3828G>A synonymous_variant 1.0
rpoC 767221 c.3852C>G synonymous_variant 1.0
rpoC 767230 c.3861G>C synonymous_variant 1.0
rpoC 767233 c.3864T>C synonymous_variant 1.0
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.71
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.78
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.78
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 0.78
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.82
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.91
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.97
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 1.0
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.98
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.98
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.98
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.98
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.98
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.97
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.97
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.94
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.86
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.8
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.78
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.5
rrs 1472271 n.426T>C 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 1472389 n.544G>A non_coding_transcript_exon_variant 1.0
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 1.0
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.81
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.98
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.98
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.98
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.98
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.98
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.98
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.95
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.98
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.93
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.98
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.88
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.75
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.97
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.97
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.98
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.98
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.98
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.98
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.98
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.97
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.5
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.5
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.5
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.5
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.5
rrs 1473054 n.1209C>T non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.5
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.5
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.67
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 1.0
rrs 1473080 n.1235C>A non_coding_transcript_exon_variant 0.67
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.67
rrs 1473083 n.1238G>A non_coding_transcript_exon_variant 0.67
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.85
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.85
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.85
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.89
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.89
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.89
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.94
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.94
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.95
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 1.0
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 1.0
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 1.0
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 1.0
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 1.0
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 1.0
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.88
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.78
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.78
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 1.0
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.67
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.67
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.67
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.4
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 1.0
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 1.0
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 1.0
rrl 1475782 n.2125T>C non_coding_transcript_exon_variant 1.0
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 1.0
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 0.8
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.8
rrl 1475877 n.2220C>T non_coding_transcript_exon_variant 0.75
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 1.0
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 1.0
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 1.0
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 1.0
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 1.0
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 1.0
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.67
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.75
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.75
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.8
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.97
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.98
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.99
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.99
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.98
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.99
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>T non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.98
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.98
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.96
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.93
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.92
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.92
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 1476530 n.2873C>T non_coding_transcript_exon_variant 0.86
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.86
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.86
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.86
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 1.0
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.92
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.89
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.75
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.75
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 1.0
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 1.0
rrl 1476664 n.3007T>C non_coding_transcript_exon_variant 1.0
rrl 1476665 n.3008T>C non_coding_transcript_exon_variant 1.0
rrl 1476674 n.3017T>C non_coding_transcript_exon_variant 1.0
rrl 1476679 n.3022T>C non_coding_transcript_exon_variant 1.0
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 1.0
rrl 1476690 n.3033C>T non_coding_transcript_exon_variant 1.0
rrl 1476693 n.3036G>A non_coding_transcript_exon_variant 1.0
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 1.0
rpsA 1834213 c.672G>C synonymous_variant 1.0
rpsA 1834234 c.693G>C synonymous_variant 1.0
rpsA 1834240 c.699T>C synonymous_variant 1.0
rpsA 1834246 c.705G>C synonymous_variant 1.0
rpsA 1834249 c.708T>C synonymous_variant 1.0
rpsA 1834252 c.711C>G synonymous_variant 1.0
rpsA 1834261 c.720A>G synonymous_variant 1.0
rpsA 1834264 c.723G>C synonymous_variant 1.0
rpsA 1834279 c.738C>T synonymous_variant 1.0
rpsA 1834297 c.756C>T synonymous_variant 1.0
rpsA 1834345 c.804C>T synonymous_variant 1.0
rpsA 1834348 c.807T>C synonymous_variant 1.0
rpsA 1834361 c.820T>C synonymous_variant 1.0
rpsA 1834366 c.825A>G synonymous_variant 1.0
rpsA 1834369 c.828C>G synonymous_variant 1.0
rpsA 1834396 c.855G>C synonymous_variant 1.0
rpoA 3877848 c.660C>T synonymous_variant 1.0
rpoA 3877856 c.652T>C synonymous_variant 1.0
rpoA 3877857 c.651G>A synonymous_variant 1.0
rpoA 3877866 c.642G>C synonymous_variant 1.0
rpoA 3877875 c.633T>A synonymous_variant 1.0
rpoA 3877878 c.630G>C synonymous_variant 1.0
rpoA 3877887 c.621G>C synonymous_variant 1.0
clpC1 4038602 c.2103G>C synonymous_variant 1.0