TB-Profiler result

Run: ERR181750
Summary

Run ID: ERR181750

Sample name:

Date: 31-03-2023 15:18:23

Number of reads: 1715673

Percentage reads mapped: 60.57

Strain: lineage1.1.3.2

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 0.96
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 0.95
lineage1.1.3 Indo-Oceanic EAI6 RD239 0.96
lineage1.1.3.2 Indo-Oceanic NA RD239 0.97
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 0.93
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8188 p.Leu296Pro missense_variant 0.97
gyrA 8452 p.Ala384Val missense_variant 0.91
gyrA 9143 c.1842T>C synonymous_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.91
ccsA 619695 c.-196G>A upstream_gene_variant 0.97
rpoC 763031 c.-339T>C upstream_gene_variant 0.97
rpoC 763884 p.Ala172Val missense_variant 0.98
rpoC 763886 c.517C>A synonymous_variant 0.98
rpoC 764536 c.1167G>T synonymous_variant 0.14
rpoC 764539 c.1170C>G synonymous_variant 0.17
rpoC 764545 c.1176C>G synonymous_variant 0.17
rpoC 764548 c.1179G>T synonymous_variant 0.16
rpoC 764572 c.1203G>C synonymous_variant 0.17
rpoC 764575 c.1206T>C synonymous_variant 0.17
rpoC 764576 c.1207_1208delTCinsAG synonymous_variant 0.18
rpoC 764579 p.Asp404His missense_variant 0.18
rpoC 764582 p.Leu405Met missense_variant 0.17
rpoC 764587 c.1218C>G synonymous_variant 0.17
rpoC 764599 c.1230G>A synonymous_variant 0.16
rpoC 764605 c.1236G>C synonymous_variant 0.17
rpoC 764611 c.1242G>T synonymous_variant 0.17
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 765230 p.Ala621Thr missense_variant 0.96
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801166 p.Gly120Ser missense_variant 0.95
fbiC 1303016 p.Val29Gly missense_variant 0.25
fbiC 1304159 p.Val410Gly missense_variant 0.19
embR 1417019 p.Cys110Tyr missense_variant 0.95
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.2
rrs 1472100 n.255T>C non_coding_transcript_exon_variant 0.28
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.36
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.42
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.55
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.57
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.56
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.62
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.62
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.66
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.6
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.58
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.55
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.52
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.5
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.46
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.33
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.27
rrs 1472256 n.411T>G non_coding_transcript_exon_variant 0.28
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.27
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.21
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.16
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.33
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.41
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.43
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.43
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.44
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.42
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.29
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.27
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.22
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.2
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.29
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.35
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.42
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.45
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.54
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.54
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.54
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.54
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.53
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.53
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.51
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.51
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.4
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.32
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.3
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.31
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.3
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.31
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.32
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.33
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.34
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.33
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.35
rrs 1473179 n.1334C>T non_coding_transcript_exon_variant 0.35
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.33
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.33
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.17
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.2
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.2
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.2
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.29
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.3
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.32
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.42
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.53
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.53
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.51
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.54
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.51
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.51
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.4
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.37
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.37
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.32
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.22
rrl 1474927 n.1271delC non_coding_transcript_exon_variant 0.14
rrl 1474931 n.1274G>A non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.21
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.21
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.24
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.23
rrl 1475843 n.2186G>A non_coding_transcript_exon_variant 0.19
rrl 1475849 n.2192G>A non_coding_transcript_exon_variant 0.18
rrl 1475853 n.2196C>T non_coding_transcript_exon_variant 0.16
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.16
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.3
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.33
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.31
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.31
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.32
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.32
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.32
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.33
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.33
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.33
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.33
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.57
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.59
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.58
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.6
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.65
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.64
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.64
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.72
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.71
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.71
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.56
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.48
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.26
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.13
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.16
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.16
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.2
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.2
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.21
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.18
rrl 1476621 n.2964C>A non_coding_transcript_exon_variant 0.17
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.17
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.17
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.17
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.17
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.17
inhA 1674883 p.Ile228Val missense_variant 0.97
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.87
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 0.97
Rv1979c 2222308 p.Asp286Gly missense_variant 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.98
eis 2714569 p.Ala255Gly missense_variant 0.32
ahpC 2726051 c.-142G>A upstream_gene_variant 0.93
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.97
fprA 3475159 p.Asn385Asp missense_variant 0.98
fbiB 3642173 c.639G>A synonymous_variant 0.91
rpoA 3878630 c.-123G>C upstream_gene_variant 0.12
rpoA 3878687 c.-180A>C upstream_gene_variant 0.91
clpC1 4038857 c.1848C>A synonymous_variant 0.26
clpC1 4040517 p.Val63Ala missense_variant 0.96
embC 4240671 p.Thr270Ile missense_variant 0.95
embC 4241042 p.Asn394Asp missense_variant 0.92
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 0.97
embA 4245969 p.Pro913Ser missense_variant 0.95
embB 4247646 p.Glu378Ala missense_variant 0.92
ubiA 4269387 p.Glu149Asp missense_variant 0.93
aftB 4269606 c.-770T>C upstream_gene_variant 0.95
ethA 4328212 c.-740delC upstream_gene_variant 0.9
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.97
gid 4407588 c.615A>G synonymous_variant 0.95
gid 4407780 c.423G>A synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 0.94