TB-Profiler result

Run: SRR1181328
Summary

Run ID: SRR1181328

Sample name:

Date: 03-04-2023 04:48:42

Number of reads: 3363989

Percentage reads mapped: 79.09

Strain: lineage2.2.1

Drug-resistance: Other

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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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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
embB 4247448 p.His312Arg missense_variant 0.17 ethambutol
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 6250 c.1011A>G synonymous_variant 0.15
gyrA 6307 c.-995T>G upstream_gene_variant 0.16
gyrA 6700 c.-602T>C upstream_gene_variant 0.17
gyrA 6703 c.-599G>C upstream_gene_variant 0.17
gyrA 6706 c.-596G>A upstream_gene_variant 0.15
gyrA 6709 c.-593A>G upstream_gene_variant 0.17
gyrA 6721 c.-581C>T upstream_gene_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7595 c.294C>G synonymous_variant 0.16
gyrA 7601 c.300C>G synonymous_variant 0.17
gyrA 7784 c.483A>G synonymous_variant 0.16
gyrA 7799 c.498A>G synonymous_variant 0.15
gyrA 8121 c.820T>C synonymous_variant 0.2
gyrA 8156 c.855T>C synonymous_variant 0.16
gyrA 8168 c.867A>G synonymous_variant 0.15
gyrA 8177 c.876A>C synonymous_variant 0.14
gyrA 8324 c.1023T>C synonymous_variant 0.17
gyrA 8339 c.1038A>G synonymous_variant 0.16
gyrA 8340 p.Ala347Ser missense_variant 0.15
gyrA 8375 c.1074G>C synonymous_variant 0.14
gyrA 8603 c.1302A>G synonymous_variant 0.17
gyrA 8609 c.1308G>C synonymous_variant 0.17
gyrA 8619 c.1318T>C synonymous_variant 0.16
gyrA 8645 c.1344C>T synonymous_variant 0.17
gyrA 8655 p.Ile452Val missense_variant 0.19
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490863 c.81C>A synonymous_variant 0.13
fgd1 491542 c.760T>C synonymous_variant 0.14
fgd1 491547 c.765A>C synonymous_variant 0.16
fgd1 491742 c.960T>C synonymous_variant 0.99
mshA 575561 p.Met72Val missense_variant 0.13
mshA 575907 p.Ala187Val missense_variant 0.88
mshA 575916 p.Asp190Ala missense_variant 0.13
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760184 c.378A>G synonymous_variant 0.15
rpoB 760196 c.390C>G synonymous_variant 0.14
rpoB 760235 c.429T>C synonymous_variant 0.16
rpoB 760475 c.669A>G synonymous_variant 0.17
rpoB 760484 c.678A>G synonymous_variant 0.18
rpoB 760591 p.Val262Ala missense_variant 0.13
rpoB 761015 c.1209G>C synonymous_variant 0.18
rpoB 761027 c.1221A>G synonymous_variant 0.19
rpoB 761036 c.1230G>C synonymous_variant 0.13
rpoB 761037 c.1231T>C synonymous_variant 0.19
rpoB 761057 c.1251G>C synonymous_variant 0.13
rpoB 761097 c.1291_1292delAGinsTC synonymous_variant 0.18
rpoB 761102 c.1296A>G synonymous_variant 0.18
rpoB 761249 c.1443A>G synonymous_variant 0.14
rpoB 761255 c.1449T>G synonymous_variant 0.16
rpoB 761492 c.1686G>C synonymous_variant 0.17
rpoB 761537 c.1731C>G synonymous_variant 0.19
rpoB 761561 c.1755C>G synonymous_variant 0.17
rpoB 761564 c.1758G>C synonymous_variant 0.17
rpoB 761573 c.1767C>G synonymous_variant 0.16
rpoB 761579 c.1773G>C synonymous_variant 0.16
rpoB 761954 c.2148C>G synonymous_variant 0.13
rpoB 762053 c.2247T>C synonymous_variant 0.14
rpoB 762114 p.Ile770Val missense_variant 0.14
rpoB 762185 c.2379G>C synonymous_variant 0.14
rpoB 762254 c.2448T>C synonymous_variant 1.0
rpoC 762410 c.-960T>C upstream_gene_variant 0.15
rpoC 762416 c.-954A>G upstream_gene_variant 0.16
rpoC 762470 c.-900G>C upstream_gene_variant 0.16
rpoC 762962 c.-408C>T upstream_gene_variant 0.14
rpoC 762983 c.-387C>A upstream_gene_variant 0.14
rpoC 763028 c.-342T>C upstream_gene_variant 0.23
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763034 c.-336C>G upstream_gene_variant 0.26
rpoC 763040 c.-330C>G upstream_gene_variant 0.27
rpoC 763070 c.-300T>C upstream_gene_variant 0.27
rpoC 763076 c.-294C>T upstream_gene_variant 0.14
rpoC 763085 c.-285C>G upstream_gene_variant 0.23
rpoC 763115 c.-255T>C upstream_gene_variant 0.18
rpoC 763127 c.-243G>C upstream_gene_variant 0.18
rpoC 763169 c.-201A>G upstream_gene_variant 0.16
rpoC 763456 c.87A>G synonymous_variant 0.16
rpoC 763486 c.117T>C synonymous_variant 0.19
rpoC 763636 c.267T>G synonymous_variant 0.19
rpoC 763660 c.291T>G synonymous_variant 0.19
rpoC 763732 c.363C>G synonymous_variant 0.16
rpoC 763744 c.375G>C synonymous_variant 0.14
rpoC 763765 c.396T>C synonymous_variant 0.16
rpoC 763771 c.402C>T synonymous_variant 0.13
rpoC 763781 p.Ser138Ala missense_variant 0.18
rpoC 763807 c.438T>C synonymous_variant 0.19
rpoC 763836 p.Ala156Val missense_variant 0.15
rpoC 763855 c.486C>T synonymous_variant 0.16
rpoC 763858 c.489A>G synonymous_variant 0.14
rpoC 763888 c.519G>T synonymous_variant 0.14
rpoC 764365 c.996C>T synonymous_variant 0.14
rpoC 764405 c.1036A>C synonymous_variant 0.14
rpoC 764431 c.1062G>C synonymous_variant 0.19
rpoC 764434 c.1065A>G synonymous_variant 0.18
rpoC 764446 c.1077T>C synonymous_variant 0.19
rpoC 764449 c.1080G>C synonymous_variant 0.19
rpoC 764458 c.1089G>C synonymous_variant 0.22
rpoC 764461 c.1092A>G synonymous_variant 0.22
rpoC 764497 c.1128A>G synonymous_variant 0.2
rpoC 764500 c.1131C>G synonymous_variant 0.18
rpoC 764521 c.1152T>C synonymous_variant 0.19
rpoC 764536 c.1167G>C synonymous_variant 0.18
rpoC 764539 c.1170C>G synonymous_variant 0.24
rpoC 764548 c.1179G>A synonymous_variant 0.16
rpoC 764575 c.1206T>G synonymous_variant 0.19
rpoC 764578 c.1209C>G synonymous_variant 0.16
rpoC 764668 c.1299C>T synonymous_variant 0.19
rpoC 764815 c.1446A>G synonymous_variant 0.14
rpoC 764833 c.1464A>G synonymous_variant 0.14
rpoC 765547 c.2178C>A synonymous_variant 0.19
rpoC 765556 c.2187G>C synonymous_variant 0.18
rpoC 765562 c.2193G>C synonymous_variant 0.17
rpoC 765685 c.2316G>A synonymous_variant 0.14
rpoC 765700 c.2331T>C synonymous_variant 0.23
rpoC 765734 c.2365T>C synonymous_variant 0.14
rpoC 765883 c.2514C>G synonymous_variant 0.18
rpoC 765886 c.2517C>G synonymous_variant 0.19
rpoC 765892 c.2523T>C synonymous_variant 0.19
rpoC 765952 c.2583G>C synonymous_variant 0.14
rpoC 766381 c.3012C>T synonymous_variant 0.16
rpoC 766384 c.3015A>G synonymous_variant 0.15
rpoC 766408 c.3039C>T synonymous_variant 0.18
rpoC 766426 c.3057C>T synonymous_variant 0.19
rpoC 766543 c.3174C>T synonymous_variant 0.2
rpoC 766573 c.3204T>C synonymous_variant 0.18
rpoC 766579 c.3210C>T synonymous_variant 0.16
rpoC 766585 c.3216T>C synonymous_variant 0.21
rpoC 766594 c.3225G>C synonymous_variant 0.21
rpoC 766607 p.Ile1080Leu missense_variant 0.18
rpoC 766672 c.3303T>C synonymous_variant 0.13
rpoC 766765 c.3396A>C synonymous_variant 0.19
rpoC 766774 c.3405T>C synonymous_variant 0.19
rpoC 766792 c.3423C>G synonymous_variant 0.15
rpoC 766795 c.3426C>T synonymous_variant 0.15
rpoC 766801 c.3432C>T synonymous_variant 0.16
rpoC 766804 c.3435A>G synonymous_variant 0.2
rpoC 766843 c.3474T>G synonymous_variant 0.18
rpoC 766864 c.3495G>C synonymous_variant 0.17
rpoC 766996 c.3627C>T synonymous_variant 0.15
rpoC 767033 c.3664_3666delTCGinsAGT synonymous_variant 0.19
rpoC 767059 c.3690T>G synonymous_variant 0.21
rpoC 767062 c.3693C>A synonymous_variant 0.2
rpoC 767098 c.3729T>C synonymous_variant 0.21
rpoC 767119 c.3750A>G synonymous_variant 0.17
rpoC 767200 c.3831G>A synonymous_variant 0.17
rpoC 767209 c.3840T>C synonymous_variant 0.14
rpoC 767221 c.3852C>G synonymous_variant 0.2
rpoC 767230 c.3861G>C synonymous_variant 0.18
rpoC 767233 c.3864T>C synonymous_variant 0.2
rpoC 767264 p.Ala1299Gln missense_variant 0.16
rpoC 767275 c.3906T>A synonymous_variant 0.15
rpoC 767281 c.3912C>G synonymous_variant 0.13
rpoC 767284 c.3915C>T synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.98
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781728 c.169T>C synonymous_variant 0.14
rplC 800648 c.-161A>C upstream_gene_variant 0.15
rplC 800693 c.-116A>C upstream_gene_variant 0.18
rplC 800714 c.-95C>T upstream_gene_variant 0.18
rplC 800715 c.-94A>C upstream_gene_variant 0.18
rplC 800723 c.-86C>G upstream_gene_variant 0.19
rplC 800877 c.69A>C synonymous_variant 0.14
fbiC 1303545 c.615A>G synonymous_variant 0.15
fbiC 1304832 c.1902C>T synonymous_variant 0.14
fbiC 1304856 c.1926C>G synonymous_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471935 n.90T>C non_coding_transcript_exon_variant 0.15
rrs 1471970 n.125G>A non_coding_transcript_exon_variant 0.14
rrs 1472040 n.195T>C non_coding_transcript_exon_variant 0.19
rrs 1472053 n.211_212delGC non_coding_transcript_exon_variant 0.18
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.21
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.26
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.14
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.19
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.19
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.18
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.18
rrl 1473924 n.267_268insT non_coding_transcript_exon_variant 0.14
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.15
rrl 1474061 n.404T>C non_coding_transcript_exon_variant 0.14
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.18
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.25
rrl 1474111 n.454T>C non_coding_transcript_exon_variant 0.18
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.16
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.14
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.14
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.21
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.22
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.15
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 0.21
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.16
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.16
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.16
rrl 1475273 n.1616T>G non_coding_transcript_exon_variant 0.17
rrl 1475289 n.1632G>A non_coding_transcript_exon_variant 0.15
rrl 1475290 n.1633A>G non_coding_transcript_exon_variant 0.15
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.15
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.16
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.2
rrl 1475402 n.1746T>A non_coding_transcript_exon_variant 0.13
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.19
rrl 1475487 n.1830C>T non_coding_transcript_exon_variant 0.14
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.13
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.19
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.19
rrl 1475638 n.1981C>T non_coding_transcript_exon_variant 0.17
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.27
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.16
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.19
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.2
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.22
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.19
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.16
rrl 1476580 n.2923G>A non_coding_transcript_exon_variant 0.18
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.17
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.15
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.15
inhA 1674015 c.-187C>A upstream_gene_variant 0.17
inhA 1674018 c.-184G>C upstream_gene_variant 0.17
inhA 1674024 c.-178T>C upstream_gene_variant 0.16
inhA 1674870 c.669T>C synonymous_variant 0.14
rpsA 1833589 c.48A>T synonymous_variant 0.18
rpsA 1833874 c.333T>C synonymous_variant 0.15
rpsA 1833928 c.387G>C synonymous_variant 0.18
rpsA 1833949 c.408T>C synonymous_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834249 c.708T>C synonymous_variant 0.15
rpsA 1834261 c.720A>G synonymous_variant 0.15
rpsA 1834348 c.807T>C synonymous_variant 0.15
rpsA 1834396 c.855G>C synonymous_variant 0.15
rpsA 1834411 c.870T>C synonymous_variant 0.14
rpsA 1834417 c.876G>C synonymous_variant 0.14
rpsA 1834451 c.910T>C synonymous_variant 0.18
rpsA 1834456 c.915T>G synonymous_variant 0.18
rpsA 1834468 c.927A>G synonymous_variant 0.19
rpsA 1834489 c.948T>C synonymous_variant 0.22
rpsA 1834495 c.954G>A synonymous_variant 0.19
rpsA 1834528 c.987T>C synonymous_variant 0.17
rpsA 1834546 c.1005T>C synonymous_variant 0.15
rpsA 1834609 c.1068T>C synonymous_variant 0.2
rpsA 1834615 c.1074C>T synonymous_variant 0.19
rpsA 1834633 c.1092A>G synonymous_variant 0.17
rpsA 1834639 c.1098T>C synonymous_variant 0.17
tlyA 1917972 c.33A>G synonymous_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
thyA 3073977 c.495A>G synonymous_variant 0.14
thyA 3073989 c.483T>C synonymous_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 0.97
rpoA 3877587 c.921A>G synonymous_variant 0.16
rpoA 3877770 c.738A>G synonymous_variant 0.14
rpoA 3877776 c.732T>C synonymous_variant 0.15
rpoA 3877782 c.726T>C synonymous_variant 0.13
rpoA 3878157 c.351C>G synonymous_variant 0.14
rpoA 3878247 c.261G>C synonymous_variant 0.16
rpoA 3878256 c.252G>C synonymous_variant 0.21
rpoA 3878262 c.246C>T synonymous_variant 0.23
rpoA 3878271 c.237T>C synonymous_variant 0.21
rpoA 3878283 p.Glu75Asp missense_variant 0.21
rpoA 3878295 c.213A>G synonymous_variant 0.17
rpoA 3878298 c.210A>G synonymous_variant 0.17
rpoA 3878641 c.-135delG upstream_gene_variant 0.14
clpC1 4038278 c.2427T>C synonymous_variant 0.16
clpC1 4038289 p.Asn806Asp missense_variant 0.13
clpC1 4038314 c.2391T>C synonymous_variant 0.14
clpC1 4038329 p.Glu792Asp missense_variant 0.14
clpC1 4038350 c.2355C>G synonymous_variant 0.17
clpC1 4038356 c.2349T>C synonymous_variant 0.16
clpC1 4038359 c.2346A>G synonymous_variant 0.16
clpC1 4038368 c.2337T>C synonymous_variant 0.16
clpC1 4038596 c.2109A>G synonymous_variant 0.16
clpC1 4038839 c.1866G>C synonymous_variant 0.14
clpC1 4038878 c.1827A>G synonymous_variant 0.23
clpC1 4038956 c.1749T>C synonymous_variant 0.14
clpC1 4038980 c.1725C>T synonymous_variant 0.15
clpC1 4039112 c.1593C>G synonymous_variant 0.14
clpC1 4039145 c.1560G>C synonymous_variant 0.13
clpC1 4039391 c.1314T>G synonymous_variant 0.16
clpC1 4039409 c.1296T>C synonymous_variant 0.15
clpC1 4039412 c.1293T>G synonymous_variant 0.15
clpC1 4039442 c.1263A>G synonymous_variant 0.14
clpC1 4040147 c.558A>G synonymous_variant 0.14
clpC1 4040551 c.154T>C synonymous_variant 0.14
embC 4240783 c.921G>C synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242838 c.-395C>G upstream_gene_variant 0.16
embA 4242844 c.-389A>G upstream_gene_variant 0.14
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245683 c.-831C>T upstream_gene_variant 0.13
embB 4246567 c.54G>T synonymous_variant 1.0
embB 4247470 c.957T>C synonymous_variant 0.14
embB 4247497 c.984T>C synonymous_variant 0.16
embB 4247500 c.987C>G synonymous_variant 0.15
embB 4247512 c.999T>C synonymous_variant 0.15
aftB 4267580 c.1257G>A synonymous_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 0.9
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0