TB-Profiler result

Run: SRR21677889

Summary

Run ID: SRR21677889

Sample name:

Date: 04-04-2023 02:49:41

Number of reads: 428950

Percentage reads mapped: 99.6

Strain: lineage2.2.1

Drug-resistance: Sensitive


Download CSV Download TXT Download PDF Download JSON
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 7360 p.Ile20Thr missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7727 c.426G>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575796 p.Ile150Asn missense_variant 0.12
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576367 c.1021dupC frameshift_variant 0.11
mshA 576388 c.1041G>T synonymous_variant 0.11
ccsA 619712 c.-179G>T upstream_gene_variant 0.11
ccsA 620024 p.Ala45Glu missense_variant 0.2
ccsA 620538 c.648G>T synonymous_variant 0.14
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759736 c.-71G>A upstream_gene_variant 0.12
rpoB 759869 c.63C>G synonymous_variant 0.12
rpoB 761130 p.Gly442Arg missense_variant 0.14
rpoB 761398 p.Asp531Gly missense_variant 0.15
rpoB 761810 p.Lys668Asn missense_variant 0.11
rpoB 762430 p.Asp875Gly missense_variant 0.18
rpoB 762556 p.Pro917Leu missense_variant 0.12
rpoB 762931 p.Pro1042Leu missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763038 c.3235dupC frameshift_variant 0.11
rpoB 763196 p.Glu1130Asp missense_variant 0.11
rpoC 764286 p.Gly306Asp missense_variant 0.13
rpoC 766307 p.Gly980Trp missense_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
fbiC 1303018 c.88C>T synonymous_variant 0.11
fbiC 1304037 c.1107G>T synonymous_variant 0.11
fbiC 1304371 p.His481Tyr missense_variant 0.14
fbiC 1304477 p.Ala516Gly missense_variant 0.2
Rv1258c 1406428 p.Ile305Val missense_variant 0.2
Rv1258c 1406468 p.Met291Ile missense_variant 0.12
Rv1258c 1406526 c.814delC frameshift_variant 0.15
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407188 c.153C>T synonymous_variant 0.14
embR 1417130 c.216_217delCC frameshift_variant 0.17
embR 1417216 c.132C>A synonymous_variant 0.12
atpE 1461184 p.Gly47Glu missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471694 n.-152T>C upstream_gene_variant 0.11
rrs 1471987 n.142G>T non_coding_transcript_exon_variant 0.11
fabG1 1673634 p.Ser65Arg missense_variant 0.15
fabG1 1674049 c.612delA frameshift_variant 0.12
inhA 1674782 p.Ile194Asn missense_variant 0.15
rpsA 1833398 c.-144G>T upstream_gene_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917890 c.-50C>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918227 c.288C>T synonymous_variant 0.13
tlyA 1918500 c.561G>T synonymous_variant 0.12
tlyA 1918541 p.Pro201Gln missense_variant 0.12
ndh 2102954 p.Ala30Glu missense_variant 0.12
ndh 2102967 p.Gly26Trp missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154812 p.Gln434Lys missense_variant 0.12
katG 2155025 p.Thr363Ser missense_variant 0.11
katG 2155564 p.Phe183Ser missense_variant 0.11
PPE35 2167679 c.2934G>T synonymous_variant 0.12
PPE35 2167770 p.Ser948Asn missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167939 p.Ala892Ser missense_variant 0.12
PPE35 2168201 c.2412A>C synonymous_variant 0.15
PPE35 2168213 c.2400G>A synonymous_variant 0.15
PPE35 2168315 c.2298T>C synonymous_variant 0.12
PPE35 2168738 p.Phe625Leu missense_variant 0.12
PPE35 2169506 c.1107G>A synonymous_variant 0.14
PPE35 2169732 p.Asn294Ser missense_variant 0.22
PPE35 2169794 c.819C>A synonymous_variant 0.2
PPE35 2170032 p.Gly194Val missense_variant 0.29
PPE35 2170229 c.384A>G synonymous_variant 0.1
PPE35 2170388 p.Trp75Cys missense_variant 0.12
Rv1979c 2221889 p.Val426Ile missense_variant 1.0
Rv1979c 2222484 c.681C>G synonymous_variant 0.1
Rv1979c 2223108 c.57C>T synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289075 p.Asp56Ala missense_variant 0.13
pncA 2289490 c.-249C>T upstream_gene_variant 0.22
pncA 2289698 c.-457C>A upstream_gene_variant 0.13
kasA 2518815 p.Arg234Leu missense_variant 0.12
kasA 2518959 p.Ala282Asp missense_variant 0.12
kasA 2519320 p.Phe402Leu missense_variant 0.22
eis 2714670 c.663C>T synonymous_variant 0.11
eis 2714714 p.Ala207Ser missense_variant 0.13
eis 2715382 c.-50T>A upstream_gene_variant 0.17
folC 2746205 p.Gly465Val missense_variant 0.12
folC 2747740 c.-142A>G upstream_gene_variant 0.12
pepQ 2860602 c.-186_-185dupCC upstream_gene_variant 0.14
Rv2752c 3065033 p.Gly387Trp missense_variant 0.12
Rv2752c 3065479 p.Phe238Ser missense_variant 0.12
Rv2752c 3065485 p.Ala236Glu missense_variant 0.12
Rv2752c 3066387 c.-197delC upstream_gene_variant 0.15
thyA 3074451 c.21G>T synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339423 c.306G>T synonymous_variant 0.17
Rv3083 3448864 p.Val121Met missense_variant 0.12
Rv3083 3449084 p.Pro194Leu missense_variant 0.18
Rv3083 3449307 p.Leu268Phe missense_variant 0.15
Rv3083 3449822 p.Asn440Ser missense_variant 0.2
fprA 3473853 c.-154C>A upstream_gene_variant 0.17
fprA 3473863 c.-144G>A upstream_gene_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474824 p.Thr273Ile missense_variant 0.13
fprA 3475318 p.Gly438Trp missense_variant 0.12
whiB7 3568453 p.Ile76Thr missense_variant 0.12
whiB7 3568513 p.Ala56Val missense_variant 0.11
Rv3236c 3612767 p.Ala117Asp missense_variant 0.22
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613024 c.93G>T synonymous_variant 0.15
Rv3236c 3613245 c.-129T>A upstream_gene_variant 0.14
Rv3236c 3613307 c.-191G>T upstream_gene_variant 0.12
alr 3840448 c.973C>A synonymous_variant 0.2
rpoA 3877617 c.891G>T synonymous_variant 0.12
rpoA 3878138 p.His124Asp missense_variant 0.11
clpC1 4039180 p.Arg509Trp missense_variant 0.12
clpC1 4039208 c.1497C>T synonymous_variant 0.12
clpC1 4039341 p.Lys455Arg missense_variant 0.11
clpC1 4040526 p.Arg60His missense_variant 0.25
clpC1 4040625 p.Tyr27Phe missense_variant 0.17
clpC1 4040698 p.Glu3Lys missense_variant 0.12
panD 4044221 p.His21Asn missense_variant 0.22
embC 4240991 p.Ala377Ser missense_variant 0.15
embC 4242507 p.Leu882Arg missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243169 c.-64G>T upstream_gene_variant 0.14
embA 4243237 p.Pro2His missense_variant 0.12
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243494 p.Leu88Val missense_variant 0.13
embA 4243614 p.Arg128Ser missense_variant 0.22
embA 4244179 p.Ala316Glu missense_variant 0.14
embA 4244194 p.Gly321Ala missense_variant 0.13
embA 4244232 p.Ala334Ser missense_variant 0.17
embA 4244470 p.Ile413Ser missense_variant 0.29
embA 4244543 c.1311C>T synonymous_variant 0.13
embA 4245516 p.Gly762Arg missense_variant 0.13
embB 4245944 c.-570C>A upstream_gene_variant 0.14
embA 4246085 p.Glu951Asp missense_variant 1.0
embB 4246744 c.231C>T synonymous_variant 0.22
embB 4248325 c.1812G>T synonymous_variant 0.11
embB 4248894 c.2383delG frameshift_variant 0.15
embB 4249174 c.2661C>T synonymous_variant 0.22
embB 4249190 c.2682delC frameshift_variant 0.29
embB 4249774 c.3261C>A synonymous_variant 0.15
embB 4249797 p.Arg1095Leu missense_variant 0.13
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267667 c.1170A>G synonymous_variant 0.15
aftB 4267875 p.Leu321Gln missense_variant 0.17
aftB 4268802 p.Ala12Val missense_variant 0.13
ethA 4326070 c.1404C>A synonymous_variant 0.12
ethR 4328002 p.Val152Met missense_variant 0.12
ethR 4328044 p.Leu166Val missense_variant 0.11
ethR 4328117 p.Glu190Gly missense_variant 0.18
ethR 4328167 p.Trp207Arg missense_variant 0.17
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