TB-Profiler result

Run: ERR4814690
Summary

Run ID: ERR4814690

Sample name:

Date: 01-04-2023 13:26:13

Number of reads: 798974

Percentage reads mapped: 94.83

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 5994 p.His252Arg missense_variant 0.1
gyrB 6811 p.Tyr524* stop_gained 0.11
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 576289 c.942G>A synonymous_variant 0.14
ccsA 619831 c.-60T>G upstream_gene_variant 0.27
rpoB 759615 c.-192A>C upstream_gene_variant 0.25
rpoB 761152 p.Leu449Gln missense_variant 0.13
rpoB 762881 p.Met1025Ile missense_variant 0.11
rpoC 762959 c.-411G>C upstream_gene_variant 0.11
rpoC 762971 c.-399G>C upstream_gene_variant 0.1
rpoC 762989 c.-381G>C upstream_gene_variant 0.12
rpoC 762995 c.-375G>T upstream_gene_variant 0.12
rpoC 763007 c.-363C>T upstream_gene_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 0.95
rpoC 763053 c.-317T>C upstream_gene_variant 0.1
rpoC 763070 c.-300T>C upstream_gene_variant 0.12
rpoB 763074 p.Thr1090Val missense_variant 0.12
rpoC 765140 p.Glu591Gln missense_variant 1.0
rpoC 766782 p.Val1138Gly missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776865 p.Met539Thr missense_variant 0.13
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.6
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.5
rrs 1472288 n.443A>T non_coding_transcript_exon_variant 0.5
rrs 1472289 n.444T>C non_coding_transcript_exon_variant 0.5
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.75
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.38
rrs 1472326 n.481T>A non_coding_transcript_exon_variant 0.43
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.43
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.22
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.2
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.2
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.18
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.18
rrs 1472445 n.601dupT non_coding_transcript_exon_variant 0.18
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.2
rrs 1472463 n.618G>A non_coding_transcript_exon_variant 0.2
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.2
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.3
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.25
rrs 1472497 n.652G>A non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.3
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.36
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.57
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.67
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.67
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.67
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.67
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.67
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.22
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.43
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.43
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.43
rrs 1472960 n.1115G>A non_coding_transcript_exon_variant 0.43
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.5
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.43
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.43
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.43
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.43
rrs 1472986 n.1141C>T non_coding_transcript_exon_variant 0.5
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.5
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.5
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.5
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.22
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.33
rrs 1473099 n.1254T>G non_coding_transcript_exon_variant 0.36
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.36
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.36
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.36
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.36
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.36
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.36
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.27
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.33
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.33
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.33
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.33
rrl 1474709 n.1053_1056delTGGT non_coding_transcript_exon_variant 0.67
rrl 1474717 n.1060_1061insGTGAG non_coding_transcript_exon_variant 0.67
rrl 1474721 n.1064G>A non_coding_transcript_exon_variant 0.67
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.67
rrl 1474740 n.1083G>C non_coding_transcript_exon_variant 0.67
rrl 1474747 n.1090C>G non_coding_transcript_exon_variant 0.67
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.67
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.67
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.67
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.67
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.6
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.43
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.33
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.33
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.33
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.67
rrl 1475762 n.2106_2108delCAA non_coding_transcript_exon_variant 0.67
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.5
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.5
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.5
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.5
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.54
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.54
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.5
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.5
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.5
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.55
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.33
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 1.0
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.5
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.5
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 0.5
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.4
rrl 1476309 n.2652G>T non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.38
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.39
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.44
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.41
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.41
rrl 1476608 n.2951C>T non_coding_transcript_exon_variant 0.29
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.28
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.29
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.25
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.25
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.25
rrl 1476661 n.3004A>G non_coding_transcript_exon_variant 0.25
rrl 1476665 n.3008T>G non_coding_transcript_exon_variant 0.25
rrl 1476666 n.3009C>T non_coding_transcript_exon_variant 0.25
rrl 1476675 n.3018C>G non_coding_transcript_exon_variant 0.25
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834795 c.1254C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167876 p.Gly913Ser missense_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168237 c.2375delC frameshift_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746524 p.Ala359Thr missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4038749 c.1956C>T synonymous_variant 0.11
clpC1 4038755 c.1950G>C synonymous_variant 0.11
clpC1 4038767 c.1938G>T synonymous_variant 0.11
clpC1 4038773 c.1932T>C synonymous_variant 0.11
clpC1 4038782 c.1923G>C synonymous_variant 0.13
clpC1 4038790 c.1915C>T synonymous_variant 0.12
clpC1 4038795 p.Ser637Thr missense_variant 0.13
clpC1 4038810 p.Gln632Ser missense_variant 0.14
clpC1 4038812 c.1893T>C synonymous_variant 0.12
clpC1 4038815 c.1890G>A synonymous_variant 0.13
clpC1 4038860 c.1845G>C synonymous_variant 0.12
clpC1 4039654 p.Thr351Ser missense_variant 0.11
clpC1 4039661 c.1044T>C synonymous_variant 0.12
clpC1 4039664 c.1041G>C synonymous_variant 0.11
clpC1 4039682 c.1023C>T synonymous_variant 0.11
clpC1 4039691 c.1014G>C synonymous_variant 0.11
clpC1 4039697 c.1008C>A synonymous_variant 0.1
clpC1 4039889 c.816G>C synonymous_variant 0.1
clpC1 4039916 c.789T>C synonymous_variant 0.13
clpC1 4039925 c.780C>T synonymous_variant 0.12
clpC1 4039931 c.774T>C synonymous_variant 0.12
clpC1 4039934 c.771G>A synonymous_variant 0.11
clpC1 4039937 c.768G>C synonymous_variant 0.11
clpC1 4039949 c.756G>C synonymous_variant 0.11
clpC1 4039952 c.753T>C synonymous_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4246191 p.Phe987Leu missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0