TB-Profiler result

Run: ERR027293
Summary

Run ID: ERR027293

Sample name:

Date: 31-03-2023 08:20:28

Number of reads: 180602

Percentage reads mapped: 61.32

Strain:

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
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 1472307 n.462C>T non_coding_transcript_exon_variant 0.22 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
gyrB 5671 c.432C>T synonymous_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 6535 c.-767C>A upstream_gene_variant 0.5
gyrA 6541 c.-761C>T upstream_gene_variant 0.67
gyrB 6542 p.Ile435Leu missense_variant 0.67
gyrA 6550 c.-752A>G upstream_gene_variant 0.5
gyrA 6551 c.-751T>C upstream_gene_variant 0.5
gyrA 6563 c.-739C>T upstream_gene_variant 0.5
gyrA 6571 c.-731T>C upstream_gene_variant 0.4
gyrA 6577 c.-725T>C upstream_gene_variant 0.4
gyrA 6580 c.-722C>G upstream_gene_variant 0.33
gyrA 6583 c.-719G>A upstream_gene_variant 0.33
gyrA 6589 c.-713G>A upstream_gene_variant 0.33
gyrA 6592 c.-710C>T upstream_gene_variant 0.29
gyrA 6598 c.-704C>G upstream_gene_variant 0.29
gyrA 6610 c.-692C>G upstream_gene_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8247 p.Ile316Val missense_variant 0.33
gyrA 8258 c.957G>A synonymous_variant 0.22
gyrA 8264 c.963T>C synonymous_variant 0.22
gyrA 8267 c.966G>C synonymous_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575732 c.385_387delCTTinsTTG synonymous_variant 0.67
mshA 575746 c.399C>G synonymous_variant 0.67
mshA 575764 c.417C>G synonymous_variant 0.5
mshA 575767 c.420G>A synonymous_variant 0.5
mshA 575770 c.423G>C synonymous_variant 0.5
mshA 575772 p.Val142Ala missense_variant 0.5
mshA 575782 c.435G>C synonymous_variant 0.5
mshA 575785 c.438T>G synonymous_variant 0.5
mshA 575786 p.Tyr147His missense_variant 0.4
mshA 575812 c.465C>T synonymous_variant 0.33
ccsA 620748 c.858T>G synonymous_variant 0.4
rpoB 761195 c.1389G>T synonymous_variant 0.5
rpoB 761201 c.1395G>A synonymous_variant 0.5
rpoB 761204 c.1398C>T synonymous_variant 0.5
rpoB 761207 c.1401C>T synonymous_variant 0.5
rpoB 761537 c.1731C>G synonymous_variant 0.5
rpoB 761573 c.1767C>G synonymous_variant 0.5
rpoB 761579 c.1773G>C synonymous_variant 0.5
rpoB 761588 c.1782C>T synonymous_variant 0.5
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763094 c.-276G>C upstream_gene_variant 0.33
rpoC 763115 c.-255T>C upstream_gene_variant 0.25
rpoC 763127 c.-243G>C upstream_gene_variant 0.25
rpoC 763721 c.352C>T synonymous_variant 0.4
rpoC 763732 c.363C>G synonymous_variant 0.33
rpoC 763741 c.372C>T synonymous_variant 0.33
rpoC 763744 c.375G>C synonymous_variant 0.33
rpoC 763765 c.396T>C synonymous_variant 0.33
rpoC 763768 c.399C>A synonymous_variant 0.29
rpoC 763790 p.Glu141Asn missense_variant 0.29
rpoC 764968 c.1599T>C synonymous_variant 0.25
rpoC 765454 c.2085C>G synonymous_variant 0.2
rpoC 765556 c.2187G>C synonymous_variant 0.33
rpoC 765562 c.2193G>C synonymous_variant 0.4
rpoC 765611 p.His748Ser missense_variant 0.5
rpoC 765625 c.2256C>G synonymous_variant 0.5
rpoC 765631 p.Asp754Glu missense_variant 0.67
rpoC 765640 c.2271A>G synonymous_variant 0.75
rpoC 765658 c.2289C>T synonymous_variant 0.33
rpoC 765700 c.2331T>C synonymous_variant 0.33
rpoC 765850 c.2481G>C synonymous_variant 0.22
rpoC 765868 c.2499G>A synonymous_variant 0.22
rpoC 765871 c.2502T>C synonymous_variant 0.22
rpoC 765886 c.2517C>G synonymous_variant 0.22
rpoC 766309 c.2940G>A synonymous_variant 0.33
rpoC 766315 c.2946C>G synonymous_variant 0.4
rpoC 766321 c.2952C>G synonymous_variant 0.4
rpoC 766348 c.2979A>G synonymous_variant 0.4
rpoC 766351 c.2982C>A synonymous_variant 0.4
rpoC 766363 c.2994G>C synonymous_variant 0.4
rpoC 766372 c.3003G>A synonymous_variant 0.4
rpoC 766528 c.3159T>C synonymous_variant 0.5
rpoC 766543 c.3174C>T synonymous_variant 0.33
rpoC 766549 c.3180G>C synonymous_variant 0.33
rpoC 766570 c.3201T>C synonymous_variant 0.25
rpoC 766573 c.3204T>C synonymous_variant 0.33
rpoC 766579 c.3210C>T synonymous_variant 0.33
rpoC 766585 c.3216T>C synonymous_variant 0.3
rpoC 766594 c.3225G>C synonymous_variant 0.2
rpoC 766607 p.Ile1080Leu missense_variant 0.3
rpoC 766645 c.3276A>G synonymous_variant 0.22
rpoC 766651 c.3282T>C synonymous_variant 0.29
rpoC 766654 c.3285C>G synonymous_variant 0.22
rpoC 766657 c.3288A>G synonymous_variant 0.22
rpoC 766666 c.3297C>T synonymous_variant 0.29
rpoC 766726 c.3357T>C synonymous_variant 0.4
rpoC 766738 c.3369G>T synonymous_variant 0.33
rpoC 766750 c.3381C>G synonymous_variant 0.4
rpoC 766753 c.3384C>T synonymous_variant 0.4
rpoC 766765 c.3396A>C synonymous_variant 0.4
rpoC 766769 c.3400C>T synonymous_variant 0.4
rpoC 766774 c.3405T>C synonymous_variant 0.4
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776132 c.2349A>G synonymous_variant 0.4
mmpL5 776141 c.2340A>C synonymous_variant 0.4
mmpL5 776198 c.2283C>G synonymous_variant 0.29
mmpL5 776207 c.2274G>C synonymous_variant 0.29
mmpL5 776459 p.Ala674Ser missense_variant 0.4
mmpL5 777028 p.Thr485Pro missense_variant 0.4
mmpL5 777826 c.655T>C synonymous_variant 0.29
mmpL5 777842 c.639C>G synonymous_variant 0.25
mmpL5 779064 c.-584G>T upstream_gene_variant 0.29
mmpR5 779079 p.Arg30Ser missense_variant 0.5
mmpR5 779080 p.Ser31Gly missense_variant 0.5
mmpL5 779083 c.-603A>G upstream_gene_variant 0.4
mmpL5 779100 c.-620A>G upstream_gene_variant 0.5
mmpL5 779107 c.-627A>G upstream_gene_variant 0.5
mmpL5 779118 c.-638C>T upstream_gene_variant 0.5
mmpL5 779119 c.-639G>A upstream_gene_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800690 c.-119C>T upstream_gene_variant 0.67
rplC 800693 c.-116A>G upstream_gene_variant 0.67
rplC 800723 c.-86C>G upstream_gene_variant 1.0
rplC 800735 c.-74C>G upstream_gene_variant 0.67
rplC 800744 c.-65G>A upstream_gene_variant 0.67
rplC 801205 p.Arg133Ser missense_variant 0.22
rplC 801210 c.402T>C synonymous_variant 0.44
rplC 801222 c.414T>C synonymous_variant 0.33
rplC 801249 c.441T>G synonymous_variant 0.5
rplC 801255 c.447C>T synonymous_variant 0.43
rplC 801264 c.456C>T synonymous_variant 0.43
rplC 801267 c.459A>C synonymous_variant 0.33
rplC 801312 c.504G>C synonymous_variant 0.67
rplC 801396 c.588T>C synonymous_variant 0.4
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
Rv1258c 1407299 p.Phe14Leu missense_variant 0.5
embR 1417338 p.Ser4Gly missense_variant 0.25
atpE 1461219 c.175T>C synonymous_variant 0.5
atpE 1461230 c.186G>C synonymous_variant 0.4
atpE 1461233 c.189A>C synonymous_variant 0.4
atpE 1461239 c.195C>T synonymous_variant 0.4
atpE 1461275 c.231T>C synonymous_variant 0.5
atpE 1461278 c.234A>G synonymous_variant 0.5
atpE 1461284 c.240C>T synonymous_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472300 n.455C>T non_coding_transcript_exon_variant 0.2
rrs 1473079 n.1234G>A non_coding_transcript_exon_variant 0.78
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.25
rrl 1473571 n.-87C>T upstream_gene_variant 0.4
rrl 1473594 n.-64_-63insT upstream_gene_variant 0.5
rrl 1473600 n.-58A>G upstream_gene_variant 0.33
rrl 1473627 n.-31_-30insG upstream_gene_variant 0.29
rrl 1473635 n.-23_-22insTTT upstream_gene_variant 0.25
rrl 1473752 n.95G>T non_coding_transcript_exon_variant 0.4
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.33
rrl 1473815 n.158T>C non_coding_transcript_exon_variant 0.33
rrl 1473836 n.179A>G non_coding_transcript_exon_variant 0.2
rrl 1473923 n.266C>A non_coding_transcript_exon_variant 0.43
rrl 1473924 n.267_268insT non_coding_transcript_exon_variant 0.43
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.33
rrl 1473944 n.287G>T non_coding_transcript_exon_variant 0.33
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.3
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.4
rrl 1474028 n.371T>C non_coding_transcript_exon_variant 0.33
rrl 1474029 n.372G>A non_coding_transcript_exon_variant 0.38
rrl 1474034 n.377G>A non_coding_transcript_exon_variant 0.38
rrl 1474040 n.383G>A non_coding_transcript_exon_variant 0.6
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.67
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.5
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.4
fabG1 1673449 p.Thr4Pro missense_variant 0.67
rpsA 1833802 c.261A>G synonymous_variant 0.4
rpsA 1833811 c.270G>T synonymous_variant 0.5
rpsA 1833820 c.279G>A synonymous_variant 0.5
rpsA 1833856 c.315A>G synonymous_variant 0.6
rpsA 1833862 c.321G>A synonymous_variant 0.6
rpsA 1833874 c.333T>C synonymous_variant 0.5
rpsA 1834348 c.807T>C synonymous_variant 0.4
rpsA 1834366 c.825A>G synonymous_variant 0.5
rpsA 1834369 c.828C>G synonymous_variant 0.5
rpsA 1834396 c.855G>C synonymous_variant 0.75
rpsA 1834411 c.870T>C synonymous_variant 0.67
rpsA 1834417 c.876G>C synonymous_variant 0.67
rpsA 1834423 c.882G>C synonymous_variant 0.67
rpsA 1834451 c.910T>C synonymous_variant 0.8
rpsA 1834456 c.915T>G synonymous_variant 0.8
rpsA 1834459 c.918G>C synonymous_variant 0.8
rpsA 1834468 c.927A>G synonymous_variant 0.75
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2155605 c.507C>A synonymous_variant 0.5
katG 2156056 p.Gly19Val missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168460 p.Asn718Ser missense_variant 1.0
PPE35 2168726 c.1887C>A synonymous_variant 0.33
PPE35 2169320 p.Leu431Phe missense_variant 0.4
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518765 c.651G>C synonymous_variant 0.67
kasA 2518780 c.666G>A synonymous_variant 0.67
kasA 2518783 c.669T>C synonymous_variant 0.67
kasA 2518789 c.675G>C synonymous_variant 0.67
kasA 2518795 c.681C>G synonymous_variant 0.4
eis 2714215 p.Asn373Ser missense_variant 0.33
eis 2714835 c.498C>T synonymous_variant 0.5
eis 2715185 p.Asp50Tyr missense_variant 0.67
ahpC 2726408 c.216T>C synonymous_variant 0.33
ahpC 2726432 c.240C>G synonymous_variant 0.4
ahpC 2726436 p.Ile82Val missense_variant 0.4
ahpC 2726444 c.252G>T synonymous_variant 0.33
ahpC 2726447 c.255T>C synonymous_variant 0.33
ahpC 2726453 c.261T>C synonymous_variant 0.33
pepQ 2859381 c.1038C>G synonymous_variant 0.67
pepQ 2859974 p.Ala149Pro missense_variant 0.5
Rv2752c 3065187 c.1005G>T synonymous_variant 0.15
Rv2752c 3065202 c.990T>C synonymous_variant 0.27
Rv2752c 3065210 c.982T>C synonymous_variant 0.3
Rv2752c 3065223 c.969T>C synonymous_variant 0.27
Rv2752c 3065229 c.963G>T synonymous_variant 0.33
Rv2752c 3065232 c.960T>C synonymous_variant 0.33
Rv2752c 3065241 c.951A>G synonymous_variant 0.27
Rv2752c 3065262 c.930G>A synonymous_variant 0.3
Rv2752c 3065268 c.924A>G synonymous_variant 0.22
Rv2752c 3065283 c.909C>T synonymous_variant 0.25
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474123 c.117G>A synonymous_variant 1.0
fbiA 3641258 p.Pro239Leu missense_variant 0.67
fbiB 3642772 p.Asp413Ala missense_variant 0.75
ddn 3987111 p.Leu90Val missense_variant 0.67
clpC1 4038974 c.1731T>C synonymous_variant 0.67
clpC1 4039133 c.1572C>G synonymous_variant 0.5
clpC1 4039139 c.1566G>A synonymous_variant 0.33
clpC1 4039142 c.1563A>G synonymous_variant 0.33
clpC1 4039145 c.1560G>C synonymous_variant 0.33
clpC1 4039169 p.Glu512Asp missense_variant 0.4
clpC1 4039507 p.Ile400Val missense_variant 0.33
clpC1 4039553 c.1152C>G synonymous_variant 0.4
clpC1 4040522 c.183T>C synonymous_variant 0.5
embC 4239719 c.-144G>C upstream_gene_variant 0.33
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241182 c.1320G>T synonymous_variant 0.5
embC 4241185 c.1323G>C synonymous_variant 0.5
embC 4241197 c.1335G>C synonymous_variant 0.67
embC 4241203 c.1341T>C synonymous_variant 0.67
embC 4241230 c.1368A>G synonymous_variant 0.4
embC 4241233 c.1371G>C synonymous_variant 0.4
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246828 c.315A>G synonymous_variant 0.5
embB 4246843 c.330T>C synonymous_variant 0.5
embB 4246844 c.331T>C synonymous_variant 0.5
embB 4246853 c.340T>C synonymous_variant 0.5
embB 4246864 c.351C>T synonymous_variant 0.67
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247948 p.Val479Leu missense_variant 0.5
embB 4247965 c.1452C>G synonymous_variant 0.67
embB 4247975 p.Val488Ile missense_variant 0.5
embB 4248070 c.1557T>C synonymous_variant 0.67
embB 4248085 c.1572T>G synonymous_variant 0.67
embB 4248097 c.1584C>G synonymous_variant 0.5
embB 4248118 c.1605T>G synonymous_variant 0.5
aftB 4267305 p.Val511Ala missense_variant 0.29
aftB 4267310 c.1527G>T synonymous_variant 0.43
aftB 4267316 c.1521A>G synonymous_variant 0.29
aftB 4269189 c.-353C>T upstream_gene_variant 0.33
aftB 4269192 c.-356C>G upstream_gene_variant 0.33
aftB 4269195 c.-359C>T upstream_gene_variant 0.33
aftB 4269222 c.-386T>G upstream_gene_variant 0.25
aftB 4269225 c.-389C>T upstream_gene_variant 0.25
aftB 4269234 c.-398A>G upstream_gene_variant 0.22
aftB 4269240 c.-404G>C upstream_gene_variant 0.22
ubiA 4269243 p.His197Gln missense_variant 0.22
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0