TB-Profiler result

Run: ERR4820043
Summary

Run ID: ERR4820043

Sample name:

Date: 01-04-2023 16:27:11

Number of reads: 2528389

Percentage reads mapped: 85.0

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
gyrB 6061 c.822C>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7394 c.93T>C synonymous_variant 0.12
gyrA 7397 c.96G>C synonymous_variant 0.13
gyrA 7553 c.252C>T synonymous_variant 0.12
gyrA 7559 c.258G>C synonymous_variant 0.14
gyrA 7565 c.264C>T synonymous_variant 0.12
gyrA 7574 c.273G>C synonymous_variant 0.13
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7589 c.288G>C synonymous_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 0.97
rpoB 760841 c.1035T>C synonymous_variant 0.11
rpoB 760858 p.Val351Ala missense_variant 0.12
rpoB 760862 c.1056G>C synonymous_variant 0.12
rpoB 760865 c.1059C>T synonymous_variant 0.14
rpoB 760886 p.Glu360Asp missense_variant 0.13
rpoB 760887 p.Thr361Val missense_variant 0.13
rpoB 760910 c.1104C>T synonymous_variant 0.13
rpoB 761054 c.1248G>C synonymous_variant 0.11
rpoB 761057 c.1251G>C synonymous_variant 0.11
rpoB 761060 c.1254C>G synonymous_variant 0.11
rpoB 761063 c.1257C>G synonymous_variant 0.11
rpoB 761084 c.1278C>A synonymous_variant 0.14
rpoB 761198 c.1392G>C synonymous_variant 0.11
rpoB 761219 c.1413G>C synonymous_variant 0.15
rpoB 761234 c.1428G>C synonymous_variant 0.15
rpoB 761249 c.1443A>G synonymous_variant 0.12
rpoB 761255 c.1449T>G synonymous_variant 0.11
rpoB 761258 c.1452G>A synonymous_variant 0.11
rpoB 761261 c.1455G>C synonymous_variant 0.11
rpoB 761264 c.1458C>G synonymous_variant 0.11
rpoB 762014 c.2208C>G synonymous_variant 0.12
rpoB 762038 c.2232C>T synonymous_variant 0.11
rpoB 762233 c.2427G>C synonymous_variant 0.12
rpoB 762236 c.2430G>C synonymous_variant 0.12
rpoB 762245 c.2439G>C synonymous_variant 0.11
rpoB 762275 c.2469C>T synonymous_variant 0.12
rpoB 762284 c.2478G>C synonymous_variant 0.14
rpoB 762293 c.2487T>C synonymous_variant 0.17
rpoB 762296 c.2490G>C synonymous_variant 0.14
rpoC 762959 c.-411G>C upstream_gene_variant 0.11
rpoC 762962 c.-408C>T upstream_gene_variant 0.12
rpoC 763031 c.-339T>G upstream_gene_variant 0.14
rpoC 763034 c.-336C>G upstream_gene_variant 0.11
rpoC 763040 c.-330C>G upstream_gene_variant 0.11
rpoC 763070 c.-300T>C upstream_gene_variant 0.15
rpoC 763082 c.-288C>T upstream_gene_variant 0.17
rpoC 763088 c.-282C>G upstream_gene_variant 0.16
rpoC 763094 c.-276G>C upstream_gene_variant 0.15
rpoC 763115 c.-255T>C upstream_gene_variant 0.14
rpoC 763136 c.-234C>T upstream_gene_variant 0.13
rpoC 763486 c.117T>C synonymous_variant 0.11
rpoC 763492 c.123G>C synonymous_variant 0.12
rpoC 763528 c.159G>A synonymous_variant 0.18
rpoC 763531 c.162G>T synonymous_variant 0.18
rpoC 763546 c.177A>G synonymous_variant 0.21
rpoC 763570 c.201G>C synonymous_variant 0.22
rpoC 764098 c.729A>G synonymous_variant 0.1
rpoC 764371 c.1002G>C synonymous_variant 0.11
rpoC 764377 c.1008C>G synonymous_variant 0.11
rpoC 764380 c.1011G>C synonymous_variant 0.11
rpoC 764387 c.1018T>C synonymous_variant 0.12
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.12
rpoC 764524 c.1155C>G synonymous_variant 0.14
rpoC 764530 c.1161C>G synonymous_variant 0.14
rpoC 764534 c.1165C>A synonymous_variant 0.15
rpoC 764539 c.1170C>T synonymous_variant 0.15
rpoC 764542 c.1173C>T synonymous_variant 0.15
rpoC 764545 c.1176C>A synonymous_variant 0.15
rpoC 764560 c.1191T>C synonymous_variant 0.19
rpoC 764575 c.1206T>G synonymous_variant 0.18
rpoC 764611 c.1242G>T synonymous_variant 0.21
rpoC 764626 c.1257C>T synonymous_variant 0.18
rpoC 764632 c.1263T>C synonymous_variant 0.18
rpoC 764650 c.1281G>T synonymous_variant 0.16
rpoC 764668 c.1299C>T synonymous_variant 0.17
rpoC 764692 c.1323C>T synonymous_variant 0.17
rpoC 764713 c.1344G>T synonymous_variant 0.18
rpoC 764716 c.1347G>C synonymous_variant 0.18
rpoC 764746 c.1377G>T synonymous_variant 0.18
rpoC 764752 c.1383G>C synonymous_variant 0.17
rpoC 764758 c.1389C>G synonymous_variant 0.17
rpoC 764764 c.1395T>C synonymous_variant 0.16
rpoC 764791 c.1422C>G synonymous_variant 0.16
rpoC 764803 c.1434C>T synonymous_variant 0.14
rpoC 764809 c.1440C>T synonymous_variant 0.13
rpoC 764810 p.Pro481Ala missense_variant 0.14
rpoC 764815 c.1446A>G synonymous_variant 0.15
rpoC 764824 c.1455T>C synonymous_variant 0.12
rpoC 764827 c.1458G>C synonymous_variant 0.14
rpoC 764858 c.1489T>C synonymous_variant 0.14
rpoC 764869 c.1500C>T synonymous_variant 0.14
rpoC 764875 c.1506C>A synonymous_variant 0.12
rpoC 764887 c.1518G>C synonymous_variant 0.12
rpoC 764911 c.1542A>G synonymous_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765409 c.2040T>G synonymous_variant 0.1
rpoC 765421 c.2052C>G synonymous_variant 0.11
rpoC 765449 p.Ala694Ser missense_variant 0.11
rpoC 765454 c.2085C>G synonymous_variant 0.11
rpoC 765469 c.2100G>C synonymous_variant 0.11
rpoC 765478 c.2109T>G synonymous_variant 0.11
rpoC 767008 c.3639G>A synonymous_variant 0.11
rpoC 767044 c.3675G>C synonymous_variant 0.14
rpoC 767080 c.3711G>C synonymous_variant 0.13
rpoC 767098 c.3729T>C synonymous_variant 0.16
rpoC 767104 c.3735C>G synonymous_variant 0.15
rpoC 767107 c.3738C>T synonymous_variant 0.15
rpoC 767119 c.3750A>G synonymous_variant 0.17
rpoC 767125 c.3756G>C synonymous_variant 0.16
rpoC 767149 c.3780C>T synonymous_variant 0.13
rpoC 767158 c.3789T>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777404 c.1077C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472846 n.1001C>T non_coding_transcript_exon_variant 0.33
rrs 1472847 n.1002G>A non_coding_transcript_exon_variant 0.33
rrs 1472848 n.1003T>C non_coding_transcript_exon_variant 0.33
rrs 1472860 n.1015C>T non_coding_transcript_exon_variant 0.33
rrs 1472861 n.1016G>A non_coding_transcript_exon_variant 0.33
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.11
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.11
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.1
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.1
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.14
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.14
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.14
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.13
rrs 1473288 n.1443C>T non_coding_transcript_exon_variant 0.12
rrl 1473707 n.50T>A non_coding_transcript_exon_variant 0.13
rrl 1473717 n.60G>A non_coding_transcript_exon_variant 0.19
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.32
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.35
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.36
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.35
rrl 1473770 n.113T>C non_coding_transcript_exon_variant 0.43
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.5
rrl 1473812 n.155G>A non_coding_transcript_exon_variant 0.47
rrl 1473814 n.157A>T non_coding_transcript_exon_variant 0.47
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.47
rrl 1473829 n.172G>C non_coding_transcript_exon_variant 0.5
rrl 1473831 n.174G>T non_coding_transcript_exon_variant 0.44
rrl 1473832 n.175C>T non_coding_transcript_exon_variant 0.5
rrl 1473839 n.182G>A non_coding_transcript_exon_variant 0.5
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.33
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.22
rrl 1473888 n.231T>C non_coding_transcript_exon_variant 0.25
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.25
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.33
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.33
rrl 1474181 n.524_525insT non_coding_transcript_exon_variant 0.5
rrl 1474184 n.527C>A non_coding_transcript_exon_variant 0.5
rrl 1474185 n.529delA non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.25
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.29
rrl 1474490 n.833G>A non_coding_transcript_exon_variant 0.29
rrl 1474496 n.839C>G non_coding_transcript_exon_variant 0.29
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.29
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.4
rrl 1474507 n.850G>C non_coding_transcript_exon_variant 0.4
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.5
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.67
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.8
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.8
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.75
rrl 1475202 n.1545G>C non_coding_transcript_exon_variant 0.5
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.5
rrl 1475475 n.1818C>T non_coding_transcript_exon_variant 0.5
rrl 1475479 n.1822C>T non_coding_transcript_exon_variant 0.43
rrl 1475480 n.1823A>T non_coding_transcript_exon_variant 0.43
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.5
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.33
rrl 1475531 n.1874C>T non_coding_transcript_exon_variant 0.33
rrl 1475760 n.2105_2106delGC non_coding_transcript_exon_variant 0.27
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.27
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.25
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.36
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.31
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.17
rrl 1475989 n.2332T>C non_coding_transcript_exon_variant 0.17
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.18
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.18
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.18
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.33
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.33
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.14
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.14
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.11
rpsA 1833874 c.333T>G synonymous_variant 0.11
rpsA 1833886 c.345C>G synonymous_variant 0.11
rpsA 1833894 p.Ala118Glu missense_variant 0.12
rpsA 1833928 c.387G>C synonymous_variant 0.16
rpsA 1833949 c.408T>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518768 c.654C>G synonymous_variant 0.11
kasA 2518771 c.657C>G synonymous_variant 0.12
kasA 2518783 c.669T>G synonymous_variant 0.12
kasA 2518787 p.Arg225Lys missense_variant 0.12
kasA 2518792 c.678C>T synonymous_variant 0.12
kasA 2518795 c.681C>T synonymous_variant 0.12
kasA 2518798 c.684G>C synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448432 c.-72C>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877638 c.870T>C synonymous_variant 0.11
rpoA 3877656 c.852T>G synonymous_variant 0.12
rpoA 3877665 c.843C>G synonymous_variant 0.11
rpoA 3878193 c.315T>C synonymous_variant 0.11
rpoA 3878196 p.Glu104Ala missense_variant 0.11
rpoA 3878217 c.291A>G synonymous_variant 0.12
rpoA 3878271 c.237T>C synonymous_variant 0.1
clpC1 4039097 c.1608G>T synonymous_variant 0.12
clpC1 4039103 c.1602T>C synonymous_variant 0.12
clpC1 4039106 c.1599G>C synonymous_variant 0.12
clpC1 4039121 c.1584T>C synonymous_variant 0.12
clpC1 4039442 c.1263A>G synonymous_variant 0.1
clpC1 4039466 c.1239T>C synonymous_variant 0.12
clpC1 4039469 c.1236T>C synonymous_variant 0.12
clpC1 4039472 c.1233G>C synonymous_variant 0.12
clpC1 4039478 c.1227G>C synonymous_variant 0.12
clpC1 4039481 c.1224T>C synonymous_variant 0.13
clpC1 4039487 c.1218G>C synonymous_variant 0.14
clpC1 4039522 c.1183C>T synonymous_variant 0.11
clpC1 4039541 c.1164C>G synonymous_variant 0.11
clpC1 4039661 c.1044T>C synonymous_variant 0.12
clpC1 4039682 c.1023C>G synonymous_variant 0.1
clpC1 4040546 c.159G>C synonymous_variant 0.1
clpC1 4040561 c.144A>G synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0