TB-Profiler result

Run: ERR9891984
Summary

Run ID: ERR9891984

Sample name:

Date: 02-04-2023 13:26:25

Number of reads: 1456428

Percentage reads mapped: 65.1

Strain: lineage6.3.1

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
lineage6 West-Africa 2 AFRI_1 RD702 0.97
lineage6.3 West-Africa 2 AFRI_1 RD702 0.98
lineage6.3.1 West-Africa 2 AFRI_1 RD702 0.96
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 6446 p.Ala403Ser missense_variant 0.98
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491668 p.Lys296Glu missense_variant 0.95
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760969 p.Ser388Leu missense_variant 0.97
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.97
mmpL5 776479 p.Ala668Thr missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302862 c.-69C>T upstream_gene_variant 0.97
fbiC 1302899 c.-32A>G upstream_gene_variant 0.95
atpE 1461251 c.207G>T synonymous_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.11
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.17
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.17
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.16
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.14
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.13
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.13
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.13
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.13
rrs 1472971 n.1126G>C non_coding_transcript_exon_variant 0.11
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.12
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.12
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.12
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.12
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.14
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.14
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.14
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.14
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.17
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.17
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.17
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.19
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.17
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.13
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.14
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.14
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.15
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.16
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.16
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.16
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.16
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.21
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.22
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.22
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.24
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.15
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.15
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.14
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.14
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
inhA 1674434 p.Val78Ala missense_variant 0.97
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102694 p.Val117Ile missense_variant 0.95
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.96
PPE35 2170066 p.Ala183Thr missense_variant 0.18
Rv1979c 2222308 p.Asp286Gly missense_variant 0.99
Rv1979c 2222852 p.Ala105Thr missense_variant 0.93
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.94
pepQ 2859569 p.Ala284Ser missense_variant 0.13
Rv2752c 3065656 p.Asp179Gly missense_variant 0.95
ald 3086728 c.-92C>T upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 0.99
Rv3083 3449781 c.1278G>A synonymous_variant 0.96
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3877696 p.Thr271Ile missense_variant 1.0
rpoA 3878639 c.-132C>G upstream_gene_variant 0.25
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241843 p.Leu661Ile missense_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244379 p.Pro383Ser missense_variant 1.0
embA 4245510 p.Pro760Thr missense_variant 0.17
embB 4246864 c.351C>T synonymous_variant 0.97
embB 4247646 p.Glu378Ala missense_variant 0.93
aftB 4267760 c.1077C>T synonymous_variant 0.93
aftB 4268477 c.360C>T synonymous_variant 0.92
aftB 4269351 c.-515C>T upstream_gene_variant 0.96
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269522 c.-686C>T upstream_gene_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326465 p.Ile337Val missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408167 c.35_36insG frameshift_variant 0.93