TB-Profiler result

Run: ERR4797141
Summary

Run ID: ERR4797141

Sample name:

Date: 01-04-2023 07:23:46

Number of reads: 1154740

Percentage reads mapped: 39.31

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 6400 c.-902C>T upstream_gene_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575445 p.Pro33Leu missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.33
mshA 576482 p.Val379Leu missense_variant 0.11
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762863 c.-507T>C upstream_gene_variant 0.16
rpoB 762872 p.Met1022Ile missense_variant 0.19
rpoB 762878 p.Ile1024Met missense_variant 0.18
rpoB 762879 p.Met1025Leu missense_variant 0.18
rpoB 762925 p.Thr1040Ile missense_variant 0.2
rpoC 762929 c.-441G>C upstream_gene_variant 0.21
rpoC 762932 c.-438G>C upstream_gene_variant 0.21
rpoB 762934 c.3129_3130insAGCC frameshift_variant 0.2
rpoB 762938 c.3133_3136delATGA frameshift_variant 0.19
rpoC 762965 c.-405T>C upstream_gene_variant 0.19
rpoC 762980 c.-390T>C upstream_gene_variant 0.21
rpoC 762989 c.-381G>C upstream_gene_variant 0.19
rpoC 762995 c.-375G>C upstream_gene_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764500 c.1131C>G synonymous_variant 0.16
rpoC 764537 p.Pro390Ala missense_variant 0.32
rpoC 764540 p.Val391Ile missense_variant 0.34
rpoC 764543 c.1176delC frameshift_variant 0.41
rpoC 764549 c.1181_1182delCG frameshift_variant 0.41
rpoC 764553 p.Gly395Ala missense_variant 0.41
rpoC 764557 c.1188_1189insAAG conservative_inframe_insertion 0.43
rpoC 764560 c.1191T>C synonymous_variant 0.41
rpoC 764566 c.1197C>G synonymous_variant 0.41
rpoC 764575 c.1206T>C synonymous_variant 0.44
rpoC 764581 c.1212T>C synonymous_variant 0.42
rpoC 764582 p.Leu405Met missense_variant 0.42
rpoC 764587 c.1218C>G synonymous_variant 0.45
rpoC 764623 c.1254C>T synonymous_variant 0.37
rpoC 764632 c.1263T>C synonymous_variant 0.33
rpoC 764644 c.1275G>C synonymous_variant 0.27
rpoC 764650 c.1281G>T synonymous_variant 0.25
rpoC 764656 c.1287C>G synonymous_variant 0.22
rpoC 764662 c.1293G>C synonymous_variant 0.13
rpoC 764668 c.1299C>G synonymous_variant 0.14
rpoC 764672 p.Gln435Glu missense_variant 0.13
rpoC 764675 p.Leu436Met missense_variant 0.12
rpoC 764695 c.1326T>C synonymous_variant 0.13
rpoC 764701 c.1332C>G synonymous_variant 0.13
rpoC 764705 p.Leu446Lys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416341 p.Gly336Val missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.18
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.22
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 0.22
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.23
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.24
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.26
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.25
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.29
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.28
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.36
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.38
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.27
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.27
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.17
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.3
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.29
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.25
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.25
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.32
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.55
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.55
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.55
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.55
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.55
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.61
rrs 1472974 n.1129A>T non_coding_transcript_exon_variant 0.61
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.61
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.69
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.69
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.73
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.69
rrs 1472993 n.1148G>A non_coding_transcript_exon_variant 0.69
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.79
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.79
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.79
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.79
rrs 1473038 n.1193A>C non_coding_transcript_exon_variant 0.83
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.83
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 0.29
rrl 1476028 n.2371A>G non_coding_transcript_exon_variant 0.12
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.5
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.5
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.57
rrl 1476417 n.2760T>C non_coding_transcript_exon_variant 0.5
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.45
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.36
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.36
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3065801 p.Gly131Arg missense_variant 0.11
Rv2752c 3067041 c.-850C>T upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.56
Rv3083 3449860 p.Arg453Cys missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568610 p.Asp24Asn missense_variant 0.11
fbiB 3642093 p.Leu187Met missense_variant 0.12
alr 3841473 c.-53G>A upstream_gene_variant 1.0
rpoA 3878630 c.-123G>C upstream_gene_variant 0.22
rpoA 3878641 c.-135delG upstream_gene_variant 0.2
clpC1 4040205 p.Thr167Met missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0