TB-Profiler result

Run: SRR6046860
Summary

Run ID: SRR6046860

Sample name:

Date: 04-04-2023 12:24:34

Number of reads: 1044615

Percentage reads mapped: 92.43

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 0.57 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
ccsA 620748 c.858T>G synonymous_variant 0.32
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407084 p.Val86Gly missense_variant 0.24
Rv1258c 1407407 c.-67G>C upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.12
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.12
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.29
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.18
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.22
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.25
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.25
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.25
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.25
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.25
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.25
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.25
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.25
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.29
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.33
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.33
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.33
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.5
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.5
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.5
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.67
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.67
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.5
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.33
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.29
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.29
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.29
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.5
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.57
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.25
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.25
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.22
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.22
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.33
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.22
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.22
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.2
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.22
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.3
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.3
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.3
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.22
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.13
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.23
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.5
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.57
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.57
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.15
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.62
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.5
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.6
rrs 1473078 n.1233G>T non_coding_transcript_exon_variant 0.17
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.31
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.29
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.29
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.29
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.27
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.23
rrs 1473289 n.1444_1445insTTTTG non_coding_transcript_exon_variant 0.18
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 0.23
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.33
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.33
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.29
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.5
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.33
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.75
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 1.0
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 1.0
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 1.0
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 1.0
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 1.0
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 1.0
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 1.0
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 1.0
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 0.67
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.67
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.67
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.67
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.5
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.5
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 0.2
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.43
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.57
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.57
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.5
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.57
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.67
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.67
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.67
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.67
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.67
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.75
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.75
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.71
rrl 1475995 n.2338G>C non_coding_transcript_exon_variant 0.6
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.5
rrl 1475998 n.2341C>G non_coding_transcript_exon_variant 0.5
rrl 1476000 n.2343G>A non_coding_transcript_exon_variant 0.5
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.5
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.17
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.22
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.29
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.3
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.33
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.15
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.29
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.29
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.12
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.25
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.25
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.16
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.26
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.44
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.24
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.29
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.25
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.18
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.11
fabG1 1674076 p.Thr213Pro missense_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102407 c.636T>C synonymous_variant 0.1
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.14
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.29
PPE35 2170147 p.Ser156Ala missense_variant 0.14
PPE35 2170157 p.Ala152Ser missense_variant 0.14
PPE35 2170528 p.Ser29Thr missense_variant 0.11
PPE35 2170532 c.81G>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519172 p.Leu353Arg missense_variant 0.17
ahpC 2726338 p.Val49Gly missense_variant 0.24
folC 2746648 c.951G>A synonymous_variant 0.29
folC 2746923 p.Gly226Ser missense_variant 1.0
thyX 3067464 p.Ile161Thr missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339210 c.93G>T synonymous_variant 0.15
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475006 p.Phe334Leu missense_variant 0.13
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878486 p.Thr8Ala missense_variant 0.11
embC 4242557 p.Gln899* stop_gained 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243692 p.Gly154Ser missense_variant 1.0
embB 4246904 p.Val131Met missense_variant 1.0
embB 4248719 p.Gly736Ser missense_variant 0.11
ethA 4328252 c.-779T>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0