TB-Profiler result

Run: ERR4820122
Summary

Run ID: ERR4820122

Sample name:

Date: 01-04-2023 16:29:54

Number of reads: 630945

Percentage reads mapped: 81.82

Strain: lineage4.3.1.1

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
lineage4.3.1 Euro-American (LAM) LAM9 None 0.99
lineage4.3.1.1 Euro-American (LAM) LAM9 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 0.85 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 490751 c.-32T>G upstream_gene_variant 0.27
mshA 576488 p.Val381His missense_variant 0.18
mshA 576723 p.Val459Gly missense_variant 0.5
rpoB 759620 c.-187A>C upstream_gene_variant 0.33
rpoB 759629 c.-178T>A upstream_gene_variant 0.17
rpoB 762299 c.2495delA frameshift_variant 0.1
rpoC 763714 c.345G>C synonymous_variant 0.12
rpoC 763717 c.348T>C synonymous_variant 0.12
rpoC 763729 c.360G>C synonymous_variant 0.1
rpoC 763732 c.363C>G synonymous_variant 0.1
rpoC 764644 c.1275G>T synonymous_variant 0.13
rpoC 764650 c.1281G>T synonymous_variant 0.14
rpoC 764656 c.1287C>A synonymous_variant 0.12
rpoC 764662 c.1293G>C synonymous_variant 0.12
rpoC 764664 p.Val432Gly missense_variant 0.12
rpoC 764671 c.1302G>C synonymous_variant 0.11
rpoC 764692 c.1323C>T synonymous_variant 0.11
rpoC 764703 p.Lys445Ser missense_variant 0.1
rpoC 764706 p.Leu446Gln missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778669 c.-189G>A upstream_gene_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303894 p.Arg322Trp missense_variant 0.12
fbiC 1304517 c.1587C>T synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471660 n.-186G>A upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.4
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.4
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.43
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.22
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.22
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.25
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.2
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.18
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.17
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.57
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.44
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.22
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.44
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.38
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.5
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.5
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.5
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.25
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.6
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.6
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.57
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.5
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.69
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.17
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.69
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.85
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.92
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.27
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.78
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.6
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.43
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.27
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.18
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.18
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.2
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.15
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.13
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.27
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.35
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.31
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.44
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.31
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.15
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.55
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.36
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.5
rrs 1473101 n.1256C>T non_coding_transcript_exon_variant 0.17
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.17
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.5
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.46
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.46
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.15
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.38
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.36
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.27
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.53
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.13
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.13
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.44
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.4
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.47
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.25
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 1.0
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 1.0
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 1.0
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 1.0
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 1.0
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 1.0
rrl 1475059 n.1403_1404insTA non_coding_transcript_exon_variant 1.0
rrl 1475062 n.1405A>T non_coding_transcript_exon_variant 1.0
rrl 1475065 n.1409_1411delCAA non_coding_transcript_exon_variant 1.0
rrl 1475080 n.1425_1426delCC non_coding_transcript_exon_variant 1.0
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 1.0
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 1.0
rrl 1475109 n.1452C>T non_coding_transcript_exon_variant 1.0
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 1.0
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 1.0
rrl 1475137 n.1480A>T non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.5
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.5
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.4
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.4
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.4
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.4
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.43
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.6
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.43
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.43
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.12
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.13
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.42
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.39
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.12
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.5
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.4
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.25
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.25
fabG1 1673380 c.-60C>G upstream_gene_variant 0.11
inhA 1673393 c.-809G>A upstream_gene_variant 0.11
rpsA 1834505 p.His322Asp missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.13
PPE35 2167967 c.2646A>C synonymous_variant 0.13
PPE35 2168274 p.Thr780Met missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519177 p.Ser355Pro missense_variant 0.15
pepQ 2859333 p.Leu362Phe missense_variant 0.18
Rv2752c 3065610 c.582C>T synonymous_variant 0.13
thyX 3067374 p.Ala191Asp missense_variant 0.18
thyX 3067966 c.-21G>A upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448881 c.378C>G synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474043 p.Pro13Thr missense_variant 0.15
fprA 3475061 p.Pro352Leu missense_variant 0.12
fbiB 3641641 p.Ala36Val missense_variant 0.13
fbiB 3642161 c.627G>A synonymous_variant 0.18
fbiB 3642881 c.1347A>G stop_lost&splice_region_variant 0.2
clpC1 4038254 c.2451G>A synonymous_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040241 p.Thr155Ile missense_variant 0.11
clpC1 4040249 p.Glu152Gly missense_variant 0.11
embC 4240467 p.Thr202Ile missense_variant 0.1
embC 4240648 c.786C>T synonymous_variant 0.26
embC 4241376 p.Ala505Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242861 p.Gln1000Arg missense_variant 0.14
embA 4245660 p.Ala810Thr missense_variant 0.18
ubiA 4269239 p.Ala199Thr missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407603 c.600G>A synonymous_variant 0.11
gid 4408156 p.Leu16Arg missense_variant 1.0