TB-Profiler result

Run: SRR10808490
Summary

Run ID: SRR10808490

Sample name:

Date: 02-04-2023 18:56:10

Number of reads: 2235346

Percentage reads mapped: 85.36

Strain: lineage2.2.1.1

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
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 0.99
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7763 c.462T>C synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.29
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620694 c.804C>G synonymous_variant 0.13
rpoB 761027 c.1221A>G synonymous_variant 0.12
rpoB 761102 c.1296A>G synonymous_variant 0.12
rpoB 761132 c.1326G>T synonymous_variant 0.12
rpoB 761165 c.1359G>C synonymous_variant 0.13
rpoB 762149 c.2343G>C synonymous_variant 0.12
rpoB 762158 c.2352G>C synonymous_variant 0.16
rpoB 762167 c.2361T>C synonymous_variant 0.15
rpoB 762176 c.2370T>C synonymous_variant 0.15
rpoB 762185 c.2379G>C synonymous_variant 0.15
rpoB 762233 c.2427G>C synonymous_variant 0.17
rpoB 762245 c.2439G>C synonymous_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763792 p.Glu141Asp missense_variant 0.12
rpoC 764254 c.885G>C synonymous_variant 0.12
rpoC 767002 c.3633G>C synonymous_variant 0.12
rpoC 767008 c.3639G>A synonymous_variant 0.13
rpoC 767020 c.3651C>G synonymous_variant 0.14
rpoC 767023 c.3654C>T synonymous_variant 0.13
rpoC 767068 c.3699G>C synonymous_variant 0.13
rpoC 767098 c.3729T>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471922 n.78delT non_coding_transcript_exon_variant 0.15
rrs 1471925 n.80T>C non_coding_transcript_exon_variant 0.15
rrs 1471931 n.87delA non_coding_transcript_exon_variant 0.14
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.14
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.15
rrs 1472019 n.174G>A non_coding_transcript_exon_variant 0.15
rrs 1472023 n.178G>T non_coding_transcript_exon_variant 0.15
rrs 1472042 n.197T>G non_coding_transcript_exon_variant 0.12
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.17
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.18
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.2
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.15
rrs 1472380 n.535G>C non_coding_transcript_exon_variant 0.13
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.16
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.16
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.17
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.23
rrs 1472848 n.1003T>A non_coding_transcript_exon_variant 0.22
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.22
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.23
rrs 1472859 n.1014G>T non_coding_transcript_exon_variant 0.23
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.23
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.17
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.13
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.13
rrl 1473833 n.176G>A non_coding_transcript_exon_variant 0.14
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.16
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.14
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.14
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.14
rrl 1473899 n.242A>G non_coding_transcript_exon_variant 0.14
rrl 1473916 n.259C>A non_coding_transcript_exon_variant 0.14
rrl 1473922 n.265A>G non_coding_transcript_exon_variant 0.13
rrl 1473923 n.266C>G non_coding_transcript_exon_variant 0.13
rrl 1473924 n.267_268insT non_coding_transcript_exon_variant 0.14
rrl 1473935 n.278C>T non_coding_transcript_exon_variant 0.13
rrl 1473937 n.280C>T non_coding_transcript_exon_variant 0.13
rrl 1473943 n.286G>T non_coding_transcript_exon_variant 0.12
rrl 1473945 n.288T>A non_coding_transcript_exon_variant 0.13
rrl 1473946 n.289A>T non_coding_transcript_exon_variant 0.13
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.16
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.17
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.19
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.17
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.17
rrl 1475061 n.1404C>A non_coding_transcript_exon_variant 0.16
rrl 1475062 n.1405A>T non_coding_transcript_exon_variant 0.19
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.16
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.21
rrl 1475429 n.1772G>T non_coding_transcript_exon_variant 0.2
rrl 1475452 n.1795C>A non_coding_transcript_exon_variant 0.22
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.14
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.13
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.2
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.16
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.16
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.16
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.16
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.19
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.22
rrl 1475991 n.2334T>C non_coding_transcript_exon_variant 0.22
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.19
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.13
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.15
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.16
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.21
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.2
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.23
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.21
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.21
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.23
rrl 1476251 n.2594T>A non_coding_transcript_exon_variant 0.25
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.25
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.26
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.26
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.26
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.18
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.21
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.2
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.19
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.17
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.19
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.18
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.18
rrl 1476664 n.3007T>C non_coding_transcript_exon_variant 0.13
rrl 1476665 n.3008T>C non_coding_transcript_exon_variant 0.13
rrl 1476674 n.3017T>C non_coding_transcript_exon_variant 0.13
rrl 1476679 n.3022T>C non_coding_transcript_exon_variant 0.13
rpsA 1833694 c.153G>C synonymous_variant 0.14
rpsA 1833697 c.156C>G synonymous_variant 0.13
rpsA 1833709 c.168C>T synonymous_variant 0.13
rpsA 1833730 c.189C>T synonymous_variant 0.12
rpsA 1833734 p.Ala65Ser missense_variant 0.13
rpsA 1833745 c.204G>C synonymous_variant 0.14
rpsA 1833748 c.207C>G synonymous_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834759 c.1218A>C synonymous_variant 0.12
rpsA 1834774 c.1233C>G synonymous_variant 0.13
rpsA 1834776 p.Ala412Glu missense_variant 0.13
rpsA 1834780 c.1239A>G synonymous_variant 0.12
rpsA 1834786 c.1245A>G synonymous_variant 0.13
rpsA 1834792 c.1251G>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155361 p.Thr251Ala missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.27
PPE35 2170053 p.Thr187Ser missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714846 p.Val163Ile missense_variant 0.99
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 4038519 p.Arg729Gln missense_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.13
clpC1 4039145 c.1560G>C synonymous_variant 0.12
clpC1 4039226 c.1479T>C synonymous_variant 0.12
clpC1 4039241 c.1464G>C synonymous_variant 0.13
clpC1 4039265 c.1440C>T synonymous_variant 0.12
clpC1 4040267 c.438A>G synonymous_variant 0.14
clpC1 4040273 c.432T>G synonymous_variant 0.14
clpC1 4040277 c.427_428delTCinsAG synonymous_variant 0.13
clpC1 4040279 c.426C>G synonymous_variant 0.14
clpC1 4040291 c.414G>C synonymous_variant 0.14
clpC1 4040303 c.402G>C synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.15
embB 4248115 c.1602C>T synonymous_variant 0.91
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