TB-Profiler result

Run: ERR473340
Summary

Run ID: ERR473340

Sample name:

Date: 01-04-2023 06:38:02

Number of reads: 1166681

Percentage reads mapped: 40.13

Strain: lineage1.1.2

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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 1.0
lineage1.1.2 Indo-Oceanic EAI3;EAI5 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 5917 c.678C>T synonymous_variant 1.0
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrB 6124 c.885C>T synonymous_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 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 762888 p.His1028Asn missense_variant 0.12
rpoC 762899 c.-471G>C upstream_gene_variant 0.13
rpoB 762911 p.Ile1035Met missense_variant 0.12
rpoC 762917 c.-453C>G upstream_gene_variant 0.12
rpoC 762920 c.-450C>T upstream_gene_variant 0.13
rpoB 762942 p.Ile1046Val missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 0.97
rpoC 763884 p.Ala172Val missense_variant 0.96
rpoC 763886 c.517C>A synonymous_variant 0.96
rpoC 765171 p.Pro601Leu missense_variant 0.96
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 1417019 p.Cys110Tyr missense_variant 0.95
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.13
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.13
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.18
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.17
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.22
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.14
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.15
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.16
rrs 1472333 n.488G>T non_coding_transcript_exon_variant 0.22
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.2
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.2
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.19
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.16
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.15
rrs 1472390 n.545T>A non_coding_transcript_exon_variant 0.15
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.15
rrs 1472412 n.567A>C non_coding_transcript_exon_variant 0.15
rrs 1472415 n.570T>G non_coding_transcript_exon_variant 0.15
rrs 1472427 n.582T>C non_coding_transcript_exon_variant 0.1
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.15
rrs 1472714 n.869A>C non_coding_transcript_exon_variant 0.43
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.42
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.42
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.67
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.64
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.67
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.66
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.62
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.4
rrs 1472827 n.982G>C non_coding_transcript_exon_variant 0.33
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.35
rrs 1472839 n.994C>G non_coding_transcript_exon_variant 0.11
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.2
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.42
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.44
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.44
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.44
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.45
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.42
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.46
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.47
rrs 1473097 n.1252G>C non_coding_transcript_exon_variant 0.46
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.45
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.23
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.23
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.37
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.37
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.35
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.33
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.34
rrs 1473193 n.1348G>A non_coding_transcript_exon_variant 0.34
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.34
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.36
rrs 1473204 n.1359C>T non_coding_transcript_exon_variant 0.35
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.36
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.36
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.11
rrl 1475517 n.1860C>T non_coding_transcript_exon_variant 0.46
rrl 1475518 n.1861A>G non_coding_transcript_exon_variant 0.45
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.49
rrl 1475538 n.1881T>C non_coding_transcript_exon_variant 0.51
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.51
rrl 1475540 n.1883C>T non_coding_transcript_exon_variant 0.51
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.5
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 0.49
rrl 1475551 n.1894T>G non_coding_transcript_exon_variant 0.49
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 0.49
rrl 1475564 n.1907C>A non_coding_transcript_exon_variant 0.49
rrl 1475574 n.1917C>G non_coding_transcript_exon_variant 0.46
rrl 1475576 n.1919C>A non_coding_transcript_exon_variant 0.46
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.11
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.14
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.14
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.15
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.15
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.52
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.59
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.59
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.59
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.67
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.67
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.71
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.71
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.69
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.81
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.8
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.8
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.78
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.73
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.72
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.68
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.69
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.76
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.76
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.33
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.26
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 2167983 p.Gly877Asp missense_variant 1.0
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
eis 2715432 c.-100C>T upstream_gene_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.35
folC 2747263 c.336C>A synonymous_variant 0.12
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339741 c.624G>A 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 3474700 p.Gly232Ser missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 0.97
rpoA 3877554 c.954G>A synonymous_variant 1.0
ddn 3986723 c.-121G>T upstream_gene_variant 0.12
clpC1 4038857 c.1848C>A synonymous_variant 0.41
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4239842 c.-21C>A upstream_gene_variant 0.44
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 0.94
embC 4242425 p.Arg855Gly missense_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 0.97
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4249673 p.Ser1054Pro missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4328209 c.-736C>A upstream_gene_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
gid 4407935 p.Leu90Val missense_variant 1.0
gid 4407944 p.Gln87Glu missense_variant 1.0