TB-Profiler result

Run: ERR9786597
Summary

Run ID: ERR9786597

Sample name:

Date: 02-04-2023 12:35:52

Number of reads: 4028381

Percentage reads mapped: 84.49

Strain: lineage4.6.2.2

Drug-resistance: Sensitive

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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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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
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 7565 c.264C>T synonymous_variant 0.13
gyrA 7569 p.Ala90Ser missense_variant 0.13
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760457 c.651C>T synonymous_variant 0.12
rpoB 760463 c.657C>T synonymous_variant 0.12
rpoB 760611 c.805T>C synonymous_variant 0.13
rpoB 760646 c.840C>G synonymous_variant 0.14
rpoB 760655 c.849A>G synonymous_variant 0.14
rpoB 760661 c.855A>C synonymous_variant 0.13
rpoB 760670 c.864G>C synonymous_variant 0.13
rpoB 760674 c.868T>C synonymous_variant 0.13
rpoB 760683 c.877T>C synonymous_variant 0.13
rpoB 761217 p.Pro471Ser missense_variant 0.12
rpoB 762167 c.2361T>C synonymous_variant 0.12
rpoB 762233 c.2427G>C synonymous_variant 0.14
rpoB 762245 c.2439G>C synonymous_variant 0.13
rpoB 762284 c.2478G>T synonymous_variant 0.13
rpoC 763570 c.201G>C synonymous_variant 0.15
rpoC 763573 c.204G>C synonymous_variant 0.15
rpoC 763594 c.225C>T synonymous_variant 0.15
rpoC 763603 c.234C>T synonymous_variant 0.14
rpoC 763615 c.246G>C synonymous_variant 0.13
rpoC 763618 c.249C>T synonymous_variant 0.13
rpoC 763633 c.264T>C synonymous_variant 0.15
rpoC 763660 c.291T>G synonymous_variant 0.16
rpoC 763666 c.297G>A synonymous_variant 0.16
rpoC 763675 c.306C>G synonymous_variant 0.17
rpoC 763702 c.333C>G synonymous_variant 0.17
rpoC 763709 c.340C>T synonymous_variant 0.17
rpoC 763714 c.345G>C synonymous_variant 0.16
rpoC 763717 c.348T>C synonymous_variant 0.17
rpoC 763723 c.354G>C synonymous_variant 0.18
rpoC 763732 c.363C>T synonymous_variant 0.2
rpoC 763741 c.372C>T synonymous_variant 0.18
rpoC 763747 c.378G>A synonymous_variant 0.19
rpoC 763765 c.396T>G synonymous_variant 0.18
rpoC 763792 p.Glu141Asp missense_variant 0.16
rpoC 763807 c.438T>C synonymous_variant 0.16
rpoC 763813 c.444C>G synonymous_variant 0.17
rpoC 763831 c.462A>G synonymous_variant 0.16
rpoC 763837 c.468G>C synonymous_variant 0.16
rpoC 763840 c.471G>C synonymous_variant 0.16
rpoC 763858 c.489A>G synonymous_variant 0.13
rpoC 763861 c.492C>T synonymous_variant 0.13
rpoC 763872 p.Gly168Ala missense_variant 0.14
rpoC 763876 p.Glu169Asp missense_variant 0.13
rpoC 763879 c.510A>G synonymous_variant 0.12
rpoC 763882 c.513G>A synonymous_variant 0.12
rpoC 763891 c.522G>C synonymous_variant 0.15
rpoC 763894 c.525A>G synonymous_variant 0.15
rpoC 763900 c.531G>C synonymous_variant 0.15
rpoC 763921 c.552G>C synonymous_variant 0.13
rpoC 763924 c.555G>A synonymous_variant 0.13
rpoC 763930 c.561G>A synonymous_variant 0.13
rpoC 763933 c.564C>T synonymous_variant 0.13
rpoC 764485 c.1116G>C synonymous_variant 0.13
rpoC 764491 c.1122G>T synonymous_variant 0.13
rpoC 764500 c.1131C>G synonymous_variant 0.13
rpoC 764521 c.1152T>C synonymous_variant 0.13
rpoC 764524 c.1155C>T synonymous_variant 0.13
rpoC 764527 c.1158C>T synonymous_variant 0.13
rpoC 764530 c.1161C>G synonymous_variant 0.13
rpoC 764536 c.1167G>T synonymous_variant 0.14
rpoC 764539 c.1170C>G synonymous_variant 0.13
rpoC 764575 c.1206T>G synonymous_variant 0.15
rpoC 764605 c.1236G>C synonymous_variant 0.17
rpoC 764611 c.1242G>T synonymous_variant 0.18
rpoC 764623 c.1254C>G synonymous_variant 0.17
rpoC 764626 c.1257C>T synonymous_variant 0.16
rpoC 764632 c.1263T>C synonymous_variant 0.15
rpoC 764650 c.1281G>T synonymous_variant 0.13
rpoC 764686 c.1317C>T synonymous_variant 0.13
rpoC 764701 c.1332C>G synonymous_variant 0.13
rpoC 764707 c.1338G>C synonymous_variant 0.16
rpoC 764713 c.1344G>T synonymous_variant 0.16
rpoC 764716 c.1347G>C synonymous_variant 0.16
rpoC 764746 c.1377G>T synonymous_variant 0.17
rpoC 764752 c.1383G>C synonymous_variant 0.19
rpoC 764758 c.1389C>G synonymous_variant 0.19
rpoC 764764 c.1395T>C synonymous_variant 0.18
rpoC 764803 c.1434C>T synonymous_variant 0.17
rpoC 764809 c.1440C>T synonymous_variant 0.17
rpoC 764815 c.1446A>G synonymous_variant 0.16
rpoC 764824 c.1455T>C synonymous_variant 0.15
rpoC 764827 c.1458G>C synonymous_variant 0.16
rpoC 764851 c.1482C>T synonymous_variant 0.14
rpoC 764858 c.1489T>C synonymous_variant 0.13
rpoC 764869 c.1500C>T synonymous_variant 0.12
rpoC 764878 c.1509C>G synonymous_variant 0.12
rpoC 764948 c.1579T>C synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781929 p.Gly124Ser missense_variant 0.13
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.28
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.16
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.15
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.17
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.17
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.15
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.14
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.14
rrs 1472846 n.1001C>A non_coding_transcript_exon_variant 0.13
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.13
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.13
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.13
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.13
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.13
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.13
rrs 1472861 n.1016G>T non_coding_transcript_exon_variant 0.13
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.24
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.25
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.22
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.22
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.15
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.13
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.15
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.14
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.13
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.13
rrl 1473807 n.150T>C non_coding_transcript_exon_variant 0.13
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.12
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.13
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.14
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.13
rrl 1474629 n.972G>A non_coding_transcript_exon_variant 0.13
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.14
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.13
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.13
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.14
rrl 1474639 n.982G>T non_coding_transcript_exon_variant 0.13
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.13
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.13
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.13
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.13
rrl 1474710 n.1053T>A non_coding_transcript_exon_variant 0.13
rrl 1474711 n.1054G>C non_coding_transcript_exon_variant 0.13
rrl 1474712 n.1055G>A non_coding_transcript_exon_variant 0.12
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.14
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.13
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.13
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.15
rrl 1475531 n.1874C>T non_coding_transcript_exon_variant 0.14
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.13
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.13
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.13
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.13
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.13
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.13
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.15
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.16
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.15
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 0.15
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 0.15
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.15
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.17
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.18
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.18
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.19
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.19
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.21
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.23
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.23
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.23
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.23
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.22
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.22
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.2
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.21
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.14
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.14
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.13
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.14
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.13
rpsA 1834240 c.699T>C synonymous_variant 0.13
rpsA 1834252 c.711C>G synonymous_variant 0.13
rpsA 1834261 c.720A>G synonymous_variant 0.13
rpsA 1834279 c.738C>T synonymous_variant 0.16
rpsA 1834297 c.756C>T synonymous_variant 0.17
rpsA 1834303 c.762T>G synonymous_variant 0.17
rpsA 1834306 c.765T>C synonymous_variant 0.17
rpsA 1834345 c.804C>T synonymous_variant 0.16
rpsA 1834348 c.807T>C synonymous_variant 0.16
rpsA 1834361 c.820T>C synonymous_variant 0.15
rpsA 1834366 c.825A>G synonymous_variant 0.14
rpsA 1834396 c.855G>C synonymous_variant 0.14
rpsA 1834411 c.870T>C synonymous_variant 0.14
rpsA 1834423 c.882G>T synonymous_variant 0.14
rpsA 1834456 c.915T>G synonymous_variant 0.12
rpsA 1834468 c.927A>G synonymous_variant 0.12
rpsA 1834489 c.948T>C synonymous_variant 0.15
rpsA 1834498 c.957C>T synonymous_variant 0.16
rpsA 1834513 c.972C>G synonymous_variant 0.15
rpsA 1834520 p.Ala327Ser missense_variant 0.13
rpsA 1834528 c.987T>C synonymous_variant 0.13
rpsA 1834606 c.1065C>T synonymous_variant 0.13
rpsA 1834609 c.1068T>C synonymous_variant 0.13
rpsA 1834619 c.1078T>C synonymous_variant 0.13
rpsA 1834622 p.Ser361Thr missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 0.99
katG 2155389 c.723C>G synonymous_variant 1.0
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067474 p.Pro158Ala missense_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
rpoA 3878187 c.321C>A synonymous_variant 0.14
rpoA 3878193 c.315T>C synonymous_variant 0.14
rpoA 3878197 p.Glu104Ala missense_variant 0.14
rpoA 3878205 c.303T>C synonymous_variant 0.13
rpoA 3878217 c.291A>G synonymous_variant 0.14
rpoA 3878238 c.270C>T synonymous_variant 0.14
rpoA 3878244 c.264G>A synonymous_variant 0.14
rpoA 3878247 c.261G>C synonymous_variant 0.14
rpoA 3878256 c.252G>C synonymous_variant 0.14
rpoA 3878264 p.Ser82Gly missense_variant 0.14
rpoA 3878271 c.237T>C synonymous_variant 0.14
rpoA 3878283 p.Glu75Asp missense_variant 0.13
rpoA 3878292 c.216T>C synonymous_variant 0.13
rpoA 3878301 c.207C>G synonymous_variant 0.13
rpoA 3878331 c.177A>G synonymous_variant 0.12
rpoA 3878337 c.171T>C synonymous_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.14
clpC1 4039046 c.1659C>T synonymous_variant 0.15
clpC1 4039064 c.1641C>T synonymous_variant 0.15
clpC1 4039067 c.1638G>C synonymous_variant 0.15
clpC1 4039079 c.1626C>G synonymous_variant 0.13
clpC1 4039091 c.1614G>C synonymous_variant 0.13
clpC1 4039097 c.1608G>T synonymous_variant 0.13
clpC1 4039100 c.1605C>T synonymous_variant 0.12
clpC1 4039103 c.1602T>C synonymous_variant 0.12
clpC1 4039106 c.1599G>C synonymous_variant 0.12
clpC1 4039313 c.1392C>G synonymous_variant 0.13
clpC1 4039320 p.Ala462Gly missense_variant 0.13
clpC1 4039322 c.1383T>C synonymous_variant 0.13
clpC1 4039556 c.1149G>C synonymous_variant 0.14
clpC1 4039559 c.1146C>G synonymous_variant 0.14
clpC1 4039570 p.Met379Leu missense_variant 0.13
clpC1 4039574 p.Ala377Gly missense_variant 0.13
clpC1 4039577 c.1128T>C synonymous_variant 0.14
clpC1 4039589 c.1116G>C synonymous_variant 0.14
clpC1 4039592 c.1113G>C synonymous_variant 0.14
clpC1 4039610 c.1095G>C synonymous_variant 0.15
clpC1 4039616 c.1089G>C synonymous_variant 0.16
clpC1 4039622 c.1083C>T synonymous_variant 0.16
clpC1 4039649 c.1056G>C synonymous_variant 0.14
clpC1 4039652 c.1053G>C synonymous_variant 0.14
clpC1 4039670 c.1035G>C synonymous_variant 0.13
clpC1 4039682 c.1023C>G synonymous_variant 0.14
clpC1 4039694 c.1011G>C synonymous_variant 0.15
clpC1 4039724 c.981A>G synonymous_variant 0.13
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245745 p.Pro838Leu missense_variant 1.0
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338673 c.-152G>A upstream_gene_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0