TB-Profiler result

Run: ERR4820397
Summary

Run ID: ERR4820397

Sample name:

Date: 01-04-2023 16:39:34

Number of reads: 25334

Percentage reads mapped: 15.37

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 0.97
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
gyrA 7572 p.Ser91Ala missense_variant 0.5 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.55 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 7547 c.246C>T synonymous_variant 0.5
gyrA 7559 c.258G>C synonymous_variant 0.5
gyrA 7571 c.270G>C synonymous_variant 0.5
gyrA 7584 p.Ser95Ala missense_variant 0.5
gyrA 7589 c.288G>C synonymous_variant 0.5
gyrA 7591 p.Val97Ala missense_variant 0.5
gyrA 7596 p.Met99Leu missense_variant 0.5
gyrA 7600 p.Ala100Val missense_variant 0.5
gyrA 7625 c.324G>C synonymous_variant 0.67
gyrA 7628 c.327G>C synonymous_variant 0.67
gyrA 7631 c.330G>C synonymous_variant 0.67
gyrA 7633 p.Asp111Ala missense_variant 0.67
gyrA 7643 c.342C>T synonymous_variant 0.67
rpoC 763103 c.-267G>C upstream_gene_variant 1.0
rpoC 763109 c.-261C>T upstream_gene_variant 1.0
rpoC 763115 c.-255T>C upstream_gene_variant 1.0
rpoB 763119 p.Asn1105Asp missense_variant 1.0
rpoC 767020 c.3651C>G synonymous_variant 1.0
rpoC 767023 c.3654C>T synonymous_variant 1.0
rpoC 767038 c.3669G>C synonymous_variant 1.0
rpoC 767041 c.3672G>C synonymous_variant 1.0
rpoC 767044 c.3675G>C synonymous_variant 1.0
rrs 1472068 n.223T>G non_coding_transcript_exon_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 1.0
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 1.0
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 1.0
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 1.0
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 1.0
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 1.0
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.71
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.18
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.36
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 1.0
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.4
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 1472549 n.704G>A non_coding_transcript_exon_variant 0.33
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.4
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 1.0
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.5
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.25
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.58
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 1.0
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 1.0
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.4
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.56
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.44
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.5
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 1.0
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.8
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.8
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.45
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.38
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.31
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.62
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.38
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.62
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.58
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.58
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.69
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.17
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.83
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.8
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.96
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 1.0
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.97
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.94
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.95
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
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 0.56
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.91
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 1473101 n.1256C>T non_coding_transcript_exon_variant 0.3
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 1.0
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 1.0
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 1.0
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.89
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.94
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.92
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.95
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.95
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 1.0
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 1.0
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 1.0
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 1.0
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 1.0
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 1.0
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 1.0
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 1.0
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 1.0
rrl 1473384 n.-274A>G upstream_gene_variant 1.0
rrl 1474163 n.506C>T non_coding_transcript_exon_variant 1.0
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 1474228 n.571T>C non_coding_transcript_exon_variant 0.22
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.29
rrl 1474275 n.618T>C non_coding_transcript_exon_variant 1.0
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 1.0
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1474904 n.1247G>T non_coding_transcript_exon_variant 1.0
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 1.0
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 1.0
rrl 1474928 n.1271C>T non_coding_transcript_exon_variant 1.0
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.75
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 1.0
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 1.0
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.75
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 1.0
rrl 1475767 n.2110_2111insT non_coding_transcript_exon_variant 1.0
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.75
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 1.0
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 1.0
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 1.0
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 1.0
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 1.0
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 1.0
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 1.0
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 1.0
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 1.0
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.67
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.57
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.86
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.57
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.22
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 1.0
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.94
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.93
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.92
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 1.0
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 1.0
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 1.0
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 1.0
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 1.0
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 1.0
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 1.0
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 1.0
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 1.0
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 1.0
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 1.0
rrl 1476542 n.2885T>C non_coding_transcript_exon_variant 1.0
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 1.0
rpsA 1833661 c.120A>G synonymous_variant 1.0
rpsA 1833667 c.126C>T synonymous_variant 0.67
rpsA 1833668 p.Ile43Val missense_variant 0.67
rpsA 1833676 c.135A>G synonymous_variant 0.5
rpsA 1833679 c.138G>C synonymous_variant 0.5
rpsA 1833684 p.Arg48His missense_variant 0.5
rpsA 1833694 c.153G>C synonymous_variant 0.5
rpsA 1833721 c.180A>G synonymous_variant 0.5
rpsA 1833724 c.183C>T synonymous_variant 0.5
rpsA 1833727 c.186G>C synonymous_variant 0.5
rpsA 1834213 c.672G>A synonymous_variant 1.0
rpsA 1834228 c.687C>T synonymous_variant 1.0
rpsA 1834234 c.693G>C synonymous_variant 1.0
rpsA 1834240 c.699T>C synonymous_variant 0.6
rpsA 1834246 c.705G>T synonymous_variant 0.6
rpsA 1834249 c.708T>C synonymous_variant 0.6
rpsA 1834261 c.720A>G synonymous_variant 0.6
rpsA 1834264 c.723G>C synonymous_variant 0.6
rpsA 1834294 c.753G>C synonymous_variant 0.6
rpsA 1834298 p.Gln253Glu missense_variant 0.6
rpsA 1834306 c.765T>C synonymous_variant 0.6
rpsA 1834307 p.Asp256Gln missense_variant 0.6
rpsA 1834327 c.786G>T synonymous_variant 0.6
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
clpC1 4040517 p.Val63Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0