TB-Profiler result

Run: SRR18511647
Summary

Run ID: SRR18511647

Sample name:

Date: 03-04-2023 19:51:00

Number of reads: 4219790

Percentage reads mapped: 53.5

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
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 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764371 c.1002G>C synonymous_variant 0.12
rpoC 764383 c.1014C>G synonymous_variant 0.17
rpoC 764387 c.1018T>C synonymous_variant 0.17
rpoC 764398 c.1029G>C synonymous_variant 0.17
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.18
rpoC 764428 c.1059G>C synonymous_variant 0.19
rpoC 764431 c.1062G>C synonymous_variant 0.18
rpoC 764434 c.1065A>G synonymous_variant 0.19
rpoC 764435 c.1066_1068delAGGinsCGC synonymous_variant 0.18
rpoC 764446 p.Asp359Glu missense_variant 0.19
rpoC 764450 p.Gly361Arg missense_variant 0.18
rpoC 764461 p.Glu364Asp missense_variant 0.19
rpoC 764470 c.1101C>G synonymous_variant 0.17
rpoC 764471 p.Asn368Arg missense_variant 0.17
rpoC 764479 c.1110G>A synonymous_variant 0.16
rpoC 764485 c.1116G>C synonymous_variant 0.18
rpoC 764498 p.Ser377Ala missense_variant 0.15
rpoC 764503 c.1134G>T synonymous_variant 0.14
rpoC 764521 c.1152T>C synonymous_variant 0.1
rpoC 764605 c.1236G>C synonymous_variant 0.13
rpoC 764611 c.1242G>C synonymous_variant 0.14
rpoC 764623 c.1254C>G synonymous_variant 0.13
rpoC 764632 c.1263T>C synonymous_variant 0.1
rpoC 764641 c.1272C>T synonymous_variant 0.11
rpoC 764650 c.1281G>T synonymous_variant 0.1
rpoC 764664 p.Val432Ala missense_variant 0.1
rpoC 764668 c.1299C>G synonymous_variant 0.1
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
rrl 1476336 n.2679C>G non_coding_transcript_exon_variant 0.28
rrl 1476356 n.2699C>G non_coding_transcript_exon_variant 0.36
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.36
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.38
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.41
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.41
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.44
rrl 1476384 n.2727G>C non_coding_transcript_exon_variant 0.44
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.46
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.46
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.46
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.45
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.41
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.4
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.39
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.37
rrl 1476491 n.2834T>C non_coding_transcript_exon_variant 0.27
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.2
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.23
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.13
rpsA 1833820 p.Lys93Asn missense_variant 0.97
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153975 p.Ala713Thr missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
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
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.99
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