Run ID: ERR4817836
Sample name:
Date: 01-04-2023 15:13:11
Number of reads: 2510181
Percentage reads mapped: 99.12
Strain: lineage1.1.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5168 | c.-72G>T | upstream_gene_variant | 1.0 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_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 | 9047 | c.1746C>T | synonymous_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9443 | c.2142G>A | synonymous_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576000 | p.Asp218Ala | missense_variant | 1.0 |
rpoB | 760490 | c.684C>T | synonymous_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 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776395 | p.Phe696Leu | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1407216 | p.Gly42Glu | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472060 | n.215T>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472135 | n.290C>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472969 | n.1124A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472970 | n.1125C>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472977 | n.1132G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472978 | n.1133T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473161 | n.1316A>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473164 | n.1319C>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473177 | n.1332G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473192 | n.1347A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473199 | n.1356delA | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473205 | n.1360T>C | non_coding_transcript_exon_variant | 0.2 |
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 |
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 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 0.99 |
Rv2752c | 3065305 | p.Ala296Val | missense_variant | 0.99 |
ald | 3086788 | c.-32T>C | upstream_gene_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 |
ddn | 3987057 | p.Arg72Trp | missense_variant | 1.0 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.99 |
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 | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_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 | 0.99 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
gid | 4408009 | p.Val65Gly | missense_variant | 0.97 |
embR | 1416692 | c.-1408_655del | frameshift_variant&start_lost | 1.0 |