TB-Profiler result

Run: ERR400443
Summary

Run ID: ERR400443

Sample name:

Date: 01-04-2023 03:48:24

Number of reads: 3389687

Percentage reads mapped: 64.81

Strain: lineage1.2.1.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.2.1 Indo-Oceanic EAI2 RD239 1.0
lineage1.2.1.2 Indo-Oceanic NA RD239 1.0
lineage1.2.1.2.1 Indo-Oceanic NA RD239 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
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9260 c.1959G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575368 c.21T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 0.98
rpoC 764566 c.1197C>G synonymous_variant 0.12
rpoC 764575 c.1206T>C synonymous_variant 0.15
rpoC 764581 c.1212T>C synonymous_variant 0.16
rpoC 764582 p.Leu405Met missense_variant 0.16
rpoC 764587 c.1218C>G synonymous_variant 0.16
rpoC 764623 c.1254C>G synonymous_variant 0.18
rpoC 764632 c.1263T>C synonymous_variant 0.19
rpoC 764641 c.1272C>T synonymous_variant 0.19
rpoC 764644 c.1275G>C synonymous_variant 0.19
rpoC 764650 c.1281G>T synonymous_variant 0.19
rpoC 764656 c.1287C>G synonymous_variant 0.16
rpoC 764665 c.1296C>G synonymous_variant 0.14
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
Rv1258c 1406312 c.1029T>C synonymous_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.12
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.12
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.12
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.15
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.16
rrs 1472382 n.537G>T non_coding_transcript_exon_variant 0.14
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.27
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.28
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.25
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.26
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.22
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 1.0
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.15
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.15
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.15
rrl 1474801 n.1145delT non_coding_transcript_exon_variant 0.17
rrl 1474817 n.1160G>C non_coding_transcript_exon_variant 0.16
rrl 1474822 n.1166delC non_coding_transcript_exon_variant 0.16
rrl 1474826 n.1169T>A non_coding_transcript_exon_variant 0.15
rrl 1474828 n.1171_1172insGC non_coding_transcript_exon_variant 0.15
rrl 1474832 n.1176delG non_coding_transcript_exon_variant 0.15
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.19
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.22
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.22
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.26
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.26
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.26
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.2
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.18
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.17
rrl 1475894 n.2237C>G non_coding_transcript_exon_variant 0.16
rrl 1475904 n.2247G>A non_coding_transcript_exon_variant 0.14
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.27
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.27
rrl 1476339 n.2682G>A non_coding_transcript_exon_variant 0.28
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.34
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.38
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.4
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.41
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.54
rrl 1476417 n.2760T>C non_coding_transcript_exon_variant 0.53
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.51
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.47
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.35
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.29
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
inhA 1674162 c.-40C>T upstream_gene_variant 1.0
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
PPE35 2169320 p.Leu431Phe missense_variant 0.21
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 2519048 p.Gly312Ser missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339417 c.300A>G synonymous_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568488 c.191delG frameshift_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
clpC1 4039004 c.1701C>T synonymous_variant 1.0
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4242425 p.Arg855Gly missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243580 c.348G>A synonymous_variant 1.0
embA 4244420 c.1188G>C synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247578 c.1065G>A synonymous_variant 0.99
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269864 c.-32delG upstream_gene_variant 0.98
ethA 4327206 p.Ala90Thr missense_variant 0.27
whiB6 4338361 p.Arg54Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0