TB-Profiler result

Run: SRR12199472
Summary

Run ID: SRR12199472

Sample name:

Date: 03-04-2023 06:42:22

Number of reads: 747579

Percentage reads mapped: 90.15

Strain: lineage1.1

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
lineage1 Indo-Oceanic EAI RD239 0.99
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 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 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491395 p.Glu205Lys missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620221 p.Tyr111His missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 766009 c.2640G>C synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776041 p.Ala814Thr missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777032 c.1449C>G synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303716 c.786C>T synonymous_variant 0.15
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.22
rrs 1471900 n.55C>T non_coding_transcript_exon_variant 0.2
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.14
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.16
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.13
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.31
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.33
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.4
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.2
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.13
rrs 1472518 n.673G>C non_coding_transcript_exon_variant 0.14
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.13
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.14
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.12
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.12
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.12
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.36
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.35
rrs 1472575 n.730C>T non_coding_transcript_exon_variant 0.34
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.34
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.51
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.24
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.23
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.21
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.21
rrs 1472669 n.824_825insTAGA non_coding_transcript_exon_variant 0.25
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.25
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.24
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.25
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.23
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.24
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.25
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.24
rrs 1472701 n.856T>A non_coding_transcript_exon_variant 0.24
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.4
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.42
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.39
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.29
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.32
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.14
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.12
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.26
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.23
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.21
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.21
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.26
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.19
rrs 1473080 n.1235C>A non_coding_transcript_exon_variant 0.13
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.14
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.12
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.17
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.22
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.17
rrl 1474236 n.579G>A non_coding_transcript_exon_variant 0.18
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.2
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 0.15
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.23
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.16
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.16
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.16
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.17
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.31
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.31
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.29
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.15
rrl 1475071 n.1414G>A non_coding_transcript_exon_variant 1.0
rrl 1475154 n.1497C>A non_coding_transcript_exon_variant 0.15
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.12
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.13
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.21
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.19
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.18
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.26
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.31
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.15
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.15
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.15
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.14
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.13
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.15
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.13
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.13
rrl 1476214 n.2557G>C non_coding_transcript_exon_variant 0.13
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.12
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.25
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.51
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.4
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.39
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.33
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.34
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.34
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.33
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.33
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.32
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.32
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.31
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.31
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.31
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.52
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.52
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.51
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.49
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.4
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.4
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.41
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.29
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.29
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.29
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.37
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.27
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.12
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.22
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.18
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.18
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
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169351 p.Ala421Gly missense_variant 0.21
PPE35 2169353 c.1260C>T synonymous_variant 0.16
PPE35 2169488 c.1125G>C synonymous_variant 0.15
PPE35 2169491 c.1122T>C synonymous_variant 0.15
PPE35 2169924 p.Ala230Gly missense_variant 0.14
PPE35 2169933 p.Ile227Thr missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.46
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2714688 c.637_644dupGAATCGTT frameshift_variant 0.86
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
Rv2752c 3065307 p.Met295Ile missense_variant 0.12
Rv2752c 3065896 p.Asp99Gly missense_variant 0.11
thyX 3067675 p.His91Asn missense_variant 0.15
thyA 3074344 p.Pro43Leu missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339309 c.192C>T synonymous_variant 0.17
fbiD 3339472 p.Ala119Thr missense_variant 0.18
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568456 p.Ser75Leu missense_variant 0.14
Rv3236c 3612739 c.378C>T synonymous_variant 1.0
fbiB 3641665 p.Asp44Ala missense_variant 0.12
fbiB 3641668 p.Val45Ala missense_variant 0.12
alr 3840411 p.Gly337Asp missense_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.23
clpC1 4039003 p.Asn568Asp missense_variant 0.13
clpC1 4039048 p.Gly553Ser missense_variant 0.11
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.13
embB 4246555 c.42G>C synonymous_variant 0.14
embB 4246556 p.Ala15Pro missense_variant 0.14
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4266961 c.1876C>A synonymous_variant 0.15
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
aftB 4269621 c.-785C>A upstream_gene_variant 1.0
whiB6 4338420 c.102C>T synonymous_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
whiB6 4337939 c.-123_*231del transcript_ablation 1.0