TB-Profiler result

Run: ERR245790
Summary

Run ID: ERR245790

Sample name:

Date: 31-03-2023 18:21:00

Number of reads: 463754

Percentage reads mapped: 3.16

Strain:

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
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.99
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 6140 p.Val301Leu missense_variant 1.0
gyrB 6934 p.Gln565His missense_variant 0.44
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.88
ccsA 620407 p.Pro173Ala missense_variant 0.25
rpoC 764725 p.Phe452Leu missense_variant 0.22
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765082 c.1713G>C synonymous_variant 0.57
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417233 c.115C>T synonymous_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471892 n.47G>A non_coding_transcript_exon_variant 0.23
rrs 1471893 n.48T>G non_coding_transcript_exon_variant 0.23
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.22
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.67
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.76
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.91
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.9
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.95
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.97
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.97
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.97
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.95
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.94
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 0.9
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.9
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.88
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.88
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.88
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.45
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.86
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.97
rrs 1472349 n.504A>C non_coding_transcript_exon_variant 0.97
rrs 1472374 n.529T>G non_coding_transcript_exon_variant 0.97
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.97
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.97
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.96
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.96
rrs 1472412 n.567A>C non_coding_transcript_exon_variant 0.87
rrs 1472415 n.570T>A non_coding_transcript_exon_variant 0.57
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.65
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.72
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.69
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.72
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.72
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 0.72
rrs 1472584 n.739A>G non_coding_transcript_exon_variant 0.44
rrs 1472594 n.749G>C non_coding_transcript_exon_variant 0.86
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.86
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.9
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.8
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.73
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.83
rrs 1472714 n.869A>C non_coding_transcript_exon_variant 0.85
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.85
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.84
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.97
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.97
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.98
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.98
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.66
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.42
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.9
rrs 1472912 n.1067C>T non_coding_transcript_exon_variant 0.9
rrs 1472917 n.1072G>A non_coding_transcript_exon_variant 0.91
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.73
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.48
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.48
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.48
rrs 1473009 n.1165delC non_coding_transcript_exon_variant 0.52
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.81
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.79
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.77
rrs 1473054 n.1209C>G non_coding_transcript_exon_variant 0.79
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.8
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.77
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.77
rrs 1473081 n.1236C>G non_coding_transcript_exon_variant 0.6
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.88
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.9
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.94
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.95
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.95
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.96
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.95
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.96
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.95
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.46
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.39
rrl 1474221 n.564T>C non_coding_transcript_exon_variant 0.15
rrl 1474228 n.571T>A non_coding_transcript_exon_variant 0.2
rrl 1474235 n.578_579insC non_coding_transcript_exon_variant 0.23
rrl 1474249 n.592G>A non_coding_transcript_exon_variant 0.18
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.18
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.27
rrl 1474544 n.887G>C non_coding_transcript_exon_variant 0.13
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.19
rrl 1474558 n.901G>C non_coding_transcript_exon_variant 0.24
rrl 1474560 n.903A>G non_coding_transcript_exon_variant 0.22
rrl 1474582 n.925T>C non_coding_transcript_exon_variant 0.18
rrl 1474583 n.926C>G non_coding_transcript_exon_variant 0.19
rrl 1474584 n.927C>G non_coding_transcript_exon_variant 0.19
rrl 1474586 n.929T>A non_coding_transcript_exon_variant 0.19
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.29
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.31
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.32
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.32
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.33
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.32
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.32
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.14
rrl 1475154 n.1497C>A non_coding_transcript_exon_variant 0.29
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.26
rrl 1475538 n.1881T>C non_coding_transcript_exon_variant 0.21
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.21
rrl 1475540 n.1883C>T non_coding_transcript_exon_variant 0.21
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.21
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 0.23
rrl 1475551 n.1894T>G non_coding_transcript_exon_variant 0.21
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 0.23
rrl 1475564 n.1907C>A non_coding_transcript_exon_variant 0.23
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.29
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.86
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.91
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.91
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.93
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.93
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.59
rrl 1476126 n.2469C>T non_coding_transcript_exon_variant 0.65
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.64
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.65
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.47
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.53
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.56
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.9
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.91
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.91
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.91
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.91
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.93
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.91
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.92
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.91
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.85
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.92
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.91
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.96
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.95
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.96
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.96
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.95
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.95
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.96
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.96
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.86
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.76
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.57
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.26
fabG1 1673449 p.Thr4Pro missense_variant 0.62
rpsA 1833712 p.Tyr57* stop_gained 0.27
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918626 c.687G>C synonymous_variant 0.67
ndh 2102891 p.Phe51Ser missense_variant 0.5
katG 2154036 p.Ser692Arg missense_variant 0.33
PPE35 2167871 c.2742G>C synonymous_variant 0.6
PPE35 2169320 p.Leu431Phe missense_variant 0.25
PPE35 2169866 c.747G>C synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290000 c.-759C>A upstream_gene_variant 0.29
eis 2714366 p.Val323Leu missense_variant 0.75
eis 2714494 p.Thr280Ser missense_variant 0.89
ahpC 2726256 p.Asp22Tyr missense_variant 0.33
ahpC 2726756 c.564C>G synonymous_variant 0.33
ribD 2986723 c.-116T>C upstream_gene_variant 0.25
Rv2752c 3065618 p.Gly192Arg missense_variant 0.29
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.29
fbiD 3339304 p.Thr63Pro missense_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
Rv3236c 3612687 p.Gly144Arg missense_variant 0.4
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038835 p.Phe624Leu missense_variant 0.27
clpC1 4038841 p.Val622Leu missense_variant 0.33
clpC1 4038845 c.1858_1860delTCGinsAGC synonymous_variant 0.33
clpC1 4038849 p.Phe619Tyr missense_variant 0.38
clpC1 4038851 c.1854G>C synonymous_variant 0.38
clpC1 4038878 c.1827A>G synonymous_variant 0.29
clpC1 4038881 c.1824C>T synonymous_variant 0.29
clpC1 4038887 c.1818G>A synonymous_variant 0.33
clpC1 4038890 p.Glu605Asp missense_variant 0.33
clpC1 4039680 p.Phe342Ser missense_variant 0.33
clpC1 4040021 c.684A>G synonymous_variant 0.75
clpC1 4040032 p.Val225Ile missense_variant 0.75
clpC1 4040033 c.672G>C synonymous_variant 0.75
clpC1 4040045 c.660C>G synonymous_variant 0.8
clpC1 4040048 c.657C>T synonymous_variant 0.8
clpC1 4040051 c.654C>G synonymous_variant 0.8
clpC1 4040081 p.Thr208Lys missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245329 c.2097A>G synonymous_variant 0.25
embB 4249618 c.3105C>G synonymous_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.29
ethR 4327996 p.Ala150Pro missense_variant 0.33
whiB6 4338493 p.Thr10Lys missense_variant 0.3
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0