TB-Profiler result

Run: ERR4817628
Summary

Run ID: ERR4817628

Sample name:

Date: 01-04-2023 15:06:28

Number of reads: 5491408

Percentage reads mapped: 91.2

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 8897 c.1596T>C synonymous_variant 0.1
gyrA 8915 c.1614A>G synonymous_variant 0.1
rpoB 760376 p.Asp190Glu missense_variant 0.11
rpoB 760380 p.Thr192Pro missense_variant 0.12
rpoB 760400 c.594G>C synonymous_variant 0.15
rpoB 760407 p.Ser201Ala missense_variant 0.15
rpoB 760430 c.624T>C synonymous_variant 0.15
rpoB 760436 c.630C>G synonymous_variant 0.16
rpoB 760460 c.654G>C synonymous_variant 0.15
rpoB 760475 c.669A>G synonymous_variant 0.1
rpoB 760508 c.702G>C synonymous_variant 0.13
rpoB 760511 c.705G>C synonymous_variant 0.13
rpoB 760514 c.708C>G synonymous_variant 0.13
rpoB 760532 c.726T>C synonymous_variant 0.14
rpoB 760533 p.Val243Leu missense_variant 0.13
rpoB 760541 c.735G>C synonymous_variant 0.14
rpoB 760547 c.741G>C synonymous_variant 0.13
rpoB 760553 c.747C>G synonymous_variant 0.15
rpoB 760565 c.759A>C synonymous_variant 0.12
rpoB 760568 c.762G>C synonymous_variant 0.13
rpoB 760571 c.765G>C synonymous_variant 0.12
rpoB 760589 c.783C>G synonymous_variant 0.12
rpoB 760591 p.Val262Ala missense_variant 0.12
rpoB 761174 c.1368T>C synonymous_variant 0.11
rpoB 761180 c.1374A>G synonymous_variant 0.11
rpoB 761189 c.1383T>C synonymous_variant 0.11
rpoB 761192 c.1386C>G synonymous_variant 0.11
rpoB 761198 c.1392G>C synonymous_variant 0.11
rpoB 761213 c.1407G>C synonymous_variant 0.12
rpoB 761234 c.1428G>C synonymous_variant 0.1
rpoC 763546 c.177A>G synonymous_variant 0.12
rpoC 763558 c.189C>T synonymous_variant 0.13
rpoC 763570 c.201G>C synonymous_variant 0.14
rpoC 763573 c.204G>C synonymous_variant 0.14
rpoC 763696 c.327T>C synonymous_variant 0.14
rpoC 763699 c.330G>C synonymous_variant 0.13
rpoC 763702 c.333C>G synonymous_variant 0.14
rpoC 763708 c.339G>C synonymous_variant 0.14
rpoC 763714 c.345G>C synonymous_variant 0.13
rpoC 763717 c.348T>C synonymous_variant 0.13
rpoC 763732 c.363C>G synonymous_variant 0.15
rpoC 763735 c.366G>C synonymous_variant 0.16
rpoC 763741 c.372C>T synonymous_variant 0.16
rpoC 763744 c.375G>C synonymous_variant 0.16
rpoC 764308 c.939G>C synonymous_variant 0.1
rpoC 764320 c.951C>G synonymous_variant 0.11
rpoC 764353 c.984G>C synonymous_variant 0.12
rpoC 764387 c.1018T>C synonymous_variant 0.11
rpoC 764404 c.1035C>T synonymous_variant 0.1
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.11
rpoC 764548 c.1179G>A synonymous_variant 0.11
rpoC 764560 c.1191T>C synonymous_variant 0.12
rpoC 764632 c.1263T>C synonymous_variant 0.12
rpoC 764635 c.1266C>G synonymous_variant 0.12
rpoC 764695 c.1326T>C synonymous_variant 0.11
rpoC 764701 c.1332C>G synonymous_variant 0.11
rpoC 764716 c.1347G>C synonymous_variant 0.13
rpoC 764746 c.1377G>C synonymous_variant 0.13
rpoC 764755 c.1386C>T synonymous_variant 0.13
rpoC 764764 c.1395T>C synonymous_variant 0.15
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.15
rpoC 764797 c.1428G>C synonymous_variant 0.15
rpoC 764803 c.1434C>G synonymous_variant 0.17
rpoC 764812 c.1443C>G synonymous_variant 0.16
rpoC 764815 c.1446A>G synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
rpsL 781802 c.243G>C synonymous_variant 0.11
rpsL 781805 c.246G>C synonymous_variant 0.11
rpsL 781808 c.249C>T synonymous_variant 0.12
rpsL 781814 c.255C>T synonymous_variant 0.11
rpsL 781817 c.258G>T synonymous_variant 0.11
rpsL 781829 c.270G>C synonymous_variant 0.13
rpsL 781832 c.273T>G synonymous_variant 0.14
rpsL 781838 c.279G>T synonymous_variant 0.13
rpsL 781841 c.282C>T synonymous_variant 0.11
rpsL 781865 c.306G>C synonymous_variant 0.13
rpsL 781871 c.312G>C synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471918 n.73A>T non_coding_transcript_exon_variant 0.17
rrs 1471923 n.78T>C non_coding_transcript_exon_variant 0.18
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.18
rrs 1471932 n.87A>G non_coding_transcript_exon_variant 0.23
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.23
rrs 1471938 n.93T>A non_coding_transcript_exon_variant 0.24
rrs 1471972 n.127T>C non_coding_transcript_exon_variant 0.11
rrs 1471981 n.136C>T non_coding_transcript_exon_variant 0.12
rrs 1472023 n.178G>T non_coding_transcript_exon_variant 0.11
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.32
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.32
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.48
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.48
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.48
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.5
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.36
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.5
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.77
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.77
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.77
rrs 1473081 n.1236C>G non_coding_transcript_exon_variant 0.33
rrs 1473082 n.1237G>C non_coding_transcript_exon_variant 0.33
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.31
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.4
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.44
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.44
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.37
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.37
rrs 1473129 n.1284C>G non_coding_transcript_exon_variant 0.32
rrs 1473130 n.1285G>C non_coding_transcript_exon_variant 0.32
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.32
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.3
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.38
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.24
rrl 1473615 n.-43G>A upstream_gene_variant 0.14
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.12
rrl 1473757 n.100T>G non_coding_transcript_exon_variant 0.12
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.12
rrl 1473793 n.136G>C non_coding_transcript_exon_variant 0.21
rrl 1473797 n.140G>C non_coding_transcript_exon_variant 0.21
rrl 1473802 n.145C>G non_coding_transcript_exon_variant 0.24
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.2
rrl 1473814 n.157A>C non_coding_transcript_exon_variant 0.18
rrl 1473815 n.158T>G non_coding_transcript_exon_variant 0.18
rrl 1473816 n.159C>T non_coding_transcript_exon_variant 0.18
rrl 1473844 n.187C>A non_coding_transcript_exon_variant 0.38
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.75
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.43
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.43
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.43
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.5
rrl 1474626 n.969T>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 1474636 n.979A>T non_coding_transcript_exon_variant 1.0
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 1.0
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 1.0
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 1.0
rrl 1474674 n.1017A>C non_coding_transcript_exon_variant 0.6
rrl 1474675 n.1018C>A non_coding_transcript_exon_variant 0.6
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.6
rrl 1474709 n.1053_1056delTGGT non_coding_transcript_exon_variant 0.6
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.6
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.5
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.5
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.75
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.67
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.67
rrl 1474822 n.1165G>C non_coding_transcript_exon_variant 0.62
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.62
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.5
rrl 1475060 n.1404delC non_coding_transcript_exon_variant 0.67
rrl 1475063 n.1406A>T non_coding_transcript_exon_variant 0.67
rrl 1475065 n.1408G>A non_coding_transcript_exon_variant 0.5
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.67
rrl 1475081 n.1424C>T non_coding_transcript_exon_variant 0.67
rrl 1475084 n.1427G>T non_coding_transcript_exon_variant 0.67
rrl 1475088 n.1431A>G non_coding_transcript_exon_variant 0.67
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.67
rrl 1475109 n.1452C>T non_coding_transcript_exon_variant 0.67
rrl 1475113 n.1456C>T non_coding_transcript_exon_variant 0.67
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.67
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.67
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.67
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.5
rrl 1475688 n.2031G>A non_coding_transcript_exon_variant 0.67
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 1.0
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.67
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.57
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.5
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.5
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.56
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.44
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.56
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.64
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.45
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.5
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.42
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.42
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.25
rrl 1476032 n.2375C>G non_coding_transcript_exon_variant 0.25
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.25
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.25
rrl 1476035 n.2378G>C non_coding_transcript_exon_variant 0.25
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.29
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.29
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.29
rrl 1476047 n.2390G>C non_coding_transcript_exon_variant 0.29
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.29
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.14
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.13
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.21
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.32
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.37
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.39
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.41
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.36
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.36
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.28
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.31
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.25
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.19
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.19
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.21
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.16
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.16
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.16
rrl 1476300 n.2643G>A non_coding_transcript_exon_variant 0.16
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.16
rrl 1476377 n.2720A>G non_coding_transcript_exon_variant 0.1
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.48
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.25
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.22
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.17
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.14
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.13
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.1
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.1
rpsA 1833894 p.Ala118Glu missense_variant 0.11
rpsA 1833952 c.411C>T synonymous_variant 0.11
rpsA 1833961 c.420C>G synonymous_variant 0.11
rpsA 1833970 c.429G>C synonymous_variant 0.12
rpsA 1833973 c.432G>C synonymous_variant 0.13
rpsA 1833979 c.438T>C synonymous_variant 0.13
rpsA 1833985 c.444G>C synonymous_variant 0.14
rpsA 1833988 c.447C>G synonymous_variant 0.13
rpsA 1834000 c.459G>T synonymous_variant 0.12
rpsA 1834009 c.468C>T synonymous_variant 0.12
rpsA 1834012 c.471G>T synonymous_variant 0.12
rpsA 1834024 c.483G>C synonymous_variant 0.12
rpsA 1834054 c.513C>G synonymous_variant 0.1
rpsA 1834340 p.Met267Leu missense_variant 0.1
rpsA 1834348 c.807T>C synonymous_variant 0.11
rpsA 1834417 c.876G>C synonymous_variant 0.11
rpsA 1834423 c.882G>C synonymous_variant 0.13
rpsA 1834435 c.894G>C synonymous_variant 0.12
rpsA 1834451 c.910_912delTTGinsCTC synonymous_variant 0.14
rpsA 1834456 c.915T>C synonymous_variant 0.13
rpsA 1834465 c.924T>C synonymous_variant 0.15
rpsA 1834468 c.927A>G synonymous_variant 0.15
rpsA 1834489 c.948T>C synonymous_variant 0.15
rpsA 1834501 c.960G>C synonymous_variant 0.14
rpsA 1834504 c.963G>C synonymous_variant 0.12
rpsA 1834513 c.972C>G synonymous_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155098 c.1014C>T synonymous_variant 1.0
Rv1979c 2222717 p.Ala150Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
alr 3840764 c.657G>C synonymous_variant 1.0
clpC1 4038808 c.1896_1897insC frameshift_variant 0.14
clpC1 4038811 c.1893delT frameshift_variant 0.13
clpC1 4038860 c.1845G>T synonymous_variant 0.14
clpC1 4038878 c.1827A>G synonymous_variant 0.14
clpC1 4038896 c.1809C>G synonymous_variant 0.13
clpC1 4039004 c.1701C>G synonymous_variant 0.11
clpC1 4039016 c.1689C>G synonymous_variant 0.13
clpC1 4039022 c.1683A>G synonymous_variant 0.13
clpC1 4039085 c.1620A>G synonymous_variant 0.11
clpC1 4039091 c.1614G>C synonymous_variant 0.11
clpC1 4039724 c.981A>G synonymous_variant 0.14
clpC1 4039748 c.957G>C synonymous_variant 0.11
clpC1 4039751 c.954A>G synonymous_variant 0.12
clpC1 4039757 c.948A>G synonymous_variant 0.12
clpC1 4039766 c.939T>C synonymous_variant 0.12
clpC1 4039769 c.936C>G synonymous_variant 0.12
clpC1 4039778 c.927A>G synonymous_variant 0.11
clpC1 4039781 c.924G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246697 p.Gly62Arg missense_variant 1.0
whiB6 4338416 p.Gln36* stop_gained 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407535 p.Thr223Arg missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0