TB-Profiler result

Run: SRR6152910
Summary

Run ID: SRR6152910

Sample name:

Date: 04-04-2023 12:59:28

Number of reads: 4301456

Percentage reads mapped: 79.89

Strain: lineage1.2.1.2.1

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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.2.1 Indo-Oceanic EAI2 RD239 1.0
lineage1.2.1.2 Indo-Oceanic NA RD239 1.0
lineage1.2.1.2.1 Indo-Oceanic NA 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 0.99
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9260 c.1959G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575368 c.21T>C synonymous_variant 0.99
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406312 c.1029T>C synonymous_variant 1.0
Rv1258c 1406987 c.354G>A synonymous_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 0.99
atpE 1460907 c.-138T>C upstream_gene_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.12
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.12
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.12
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.12
rrs 1472970 n.1125C>T non_coding_transcript_exon_variant 0.12
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.12
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.13
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.13
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.13
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.13
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.12
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.12
rrs 1472993 n.1148G>A non_coding_transcript_exon_variant 0.12
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.12
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.12
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.13
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.13
rrs 1473038 n.1193A>C non_coding_transcript_exon_variant 0.1
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 1.0
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.14
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.2
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.2
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.2
rrl 1474801 n.1145delT non_coding_transcript_exon_variant 0.2
rrl 1474817 n.1160G>C non_coding_transcript_exon_variant 0.21
rrl 1474822 n.1166delC non_coding_transcript_exon_variant 0.2
rrl 1474826 n.1169T>A non_coding_transcript_exon_variant 0.2
rrl 1474828 n.1171_1172insGC non_coding_transcript_exon_variant 0.2
rrl 1474832 n.1176delG non_coding_transcript_exon_variant 0.19
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.19
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.19
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.15
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.15
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.1
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.11
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.1
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.1
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.11
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.1
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.3
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.3
rrl 1476339 n.2682G>A non_coding_transcript_exon_variant 0.32
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.41
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.49
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.5
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.5
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.52
rrl 1476417 n.2760T>C non_coding_transcript_exon_variant 0.51
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.45
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.41
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.38
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.39
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.27
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.23
rrl 1476516 n.2859G>A non_coding_transcript_exon_variant 0.18
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.18
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.19
rrl 1476521 n.2864C>T non_coding_transcript_exon_variant 0.19
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.19
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.19
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.19
rrl 1476532 n.2876_2877insCG non_coding_transcript_exon_variant 0.19
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.21
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.21
rrl 1476588 n.2931A>G non_coding_transcript_exon_variant 0.15
inhA 1674162 c.-40C>T upstream_gene_variant 1.0
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 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
kasA 2519048 p.Gly312Ser missense_variant 0.99
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339417 c.300A>G synonymous_variant 1.0
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 3568488 c.191delG frameshift_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
rpoA 3878544 c.-37C>T upstream_gene_variant 1.0
rpoA 3878580 c.-74_-73insCAACCCA upstream_gene_variant 0.14
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 4243580 c.348G>A synonymous_variant 1.0
embA 4244420 c.1188G>C synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247578 c.1065G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 0.99
aftB 4269606 c.-770T>C upstream_gene_variant 0.99
ubiA 4269864 c.-32delG upstream_gene_variant 1.0
whiB6 4338361 p.Arg54Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0