TB-Profiler result

Run: SRR9971026
Summary

Run ID: SRR9971026

Sample name:

Date: 04-04-2023 23:07:18

Number of reads: 4464801

Percentage reads mapped: 20.92

Strain: lineage4.4.1.1.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 Euro-American S;Orphans None 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 5239 c.-1C>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575719 c.372C>T synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.32
mshA 576482 p.Val379Leu missense_variant 0.18
rpoC 764602 c.1233C>T synonymous_variant 0.22
rpoC 764605 c.1236G>C synonymous_variant 0.23
rpoC 764611 c.1242G>C synonymous_variant 0.27
rpoC 764632 c.1263T>C synonymous_variant 0.25
rpoC 764650 c.1281G>T synonymous_variant 0.22
rpoC 764672 p.Gln435Tyr missense_variant 0.18
rpoC 764677 c.1308C>G synonymous_variant 0.17
rpoC 764678 p.Lys437Arg missense_variant 0.18
rpoC 764695 c.1326T>C synonymous_variant 0.19
rpoC 764701 c.1332C>G synonymous_variant 0.19
rpoC 764705 p.Leu446Lys missense_variant 0.17
rpoC 764716 c.1347G>C synonymous_variant 0.19
rpoC 764858 p.Leu497Met missense_variant 0.28
rpoC 764869 c.1500C>T synonymous_variant 0.29
rpoC 764872 c.1503A>G synonymous_variant 0.28
rpoC 764875 c.1506C>G synonymous_variant 0.27
rpoC 764887 c.1518G>T synonymous_variant 0.28
rpoC 764888 c.1519T>C synonymous_variant 0.29
rpoC 764893 c.1524T>C synonymous_variant 0.3
rpoC 764902 c.1533C>G synonymous_variant 0.3
rpoC 764911 c.1542A>G synonymous_variant 0.3
rpoC 764912 p.Met515Val missense_variant 0.29
rpoC 764918 p.Val517Ile missense_variant 0.29
rpoC 764935 c.1566T>C synonymous_variant 0.33
rpoC 764948 c.1579T>C synonymous_variant 0.33
rpoC 764953 c.1584G>C synonymous_variant 0.34
rpoC 764956 c.1587T>C synonymous_variant 0.32
rpoC 764957 p.Glu530Thr missense_variant 0.32
rpoC 764968 c.1599T>C synonymous_variant 0.31
rpoC 764998 c.1629G>C synonymous_variant 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.16
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.25
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.25
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.24
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.23
rrs 1472243 n.398G>A non_coding_transcript_exon_variant 0.23
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.21
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.2
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.21
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.18
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.2
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>G non_coding_transcript_exon_variant 0.23
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.36
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.37
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.41
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.45
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.44
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.42
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.44
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.87
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.86
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.86
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.86
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.86
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.87
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.86
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.86
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.86
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.86
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.87
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.86
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.87
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.87
rrs 1473017 n.1172A>T non_coding_transcript_exon_variant 0.21
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.84
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.8
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.8
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.75
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.65
rrs 1473070 n.1225G>A non_coding_transcript_exon_variant 0.62
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.14
rrs 1473139 n.1294T>C non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.2
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.19
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.27
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.32
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.31
rrs 1473201 n.1356A>T non_coding_transcript_exon_variant 0.29
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.28
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.13
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.13
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.72
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.77
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.76
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.78
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.77
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.82
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.81
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.83
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.82
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.81
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>T non_coding_transcript_exon_variant 0.8
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.8
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.8
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.77
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.77
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.77
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.76
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 1476481 n.2824T>C non_coding_transcript_exon_variant 0.7
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.43
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
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