TB-Profiler result

Run: SRR6044916
Summary

Run ID: SRR6044916

Sample name:

Date: 04-04-2023 11:49:42

Number of reads: 1226029

Percentage reads mapped: 46.61

Strain: lineage4.1.1

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 0.82 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
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 491027 p.Asn82Thr missense_variant 0.27
mshA 576626 p.Thr427Ser missense_variant 0.14
ccsA 620748 c.858T>G synonymous_variant 0.22
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471854 n.13_14dupAG non_coding_transcript_exon_variant 0.11
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.12
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.17
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.12
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.2
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.18
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 0.18
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.57
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.43
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.33
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.71
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.71
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.67
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.67
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.58
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.55
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.15
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.69
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.64
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.6
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.64
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.67
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.62
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.62
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.33
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.33
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.33
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.29
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.4
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.5
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.67
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.5
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.29
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.67
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.82
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.83
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.67
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.75
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.38
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.29
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.3
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.33
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.33
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.33
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.33
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.33
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.33
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.33
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.38
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.25
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.3
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.3
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.27
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 1.0
rrl 1474383 n.726G>T non_coding_transcript_exon_variant 1.0
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 1.0
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.67
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.67
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.67
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.67
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.29
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.29
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.33
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.4
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.4
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.2
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.2
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.33
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.2
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.29
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.25
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.25
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.25
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.25
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.25
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.25
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.25
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.29
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.25
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.57
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.5
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.5
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.18
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.19
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.5
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.25
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.48
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.48
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.28
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.42
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.14
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.29
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.11
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.52
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.58
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.48
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.16
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.36
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.74
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918301 p.Ser121Leu missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.13
PPE35 2170053 p.Thr187Ser missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290220 c.-979G>A upstream_gene_variant 0.12
thyX 3067297 p.Arg217Cys missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4039484 c.1221T>G synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
PPE35 2158705 c.1142_*8943del frameshift_variant&stop_lost&splice_region_variant 1.0