Run ID: ERR2229563
Sample name:
Date: 31-03-2023 17:18:59
Number of reads: 490790
Percentage reads mapped: 99.26
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7640 | p.Gln113His | missense_variant | 0.22 |
fgd1 | 491589 | p.Glu269Asp | missense_variant | 0.17 |
mshA | 576601 | c.1254C>T | synonymous_variant | 0.25 |
rpoB | 760232 | c.426G>A | synonymous_variant | 0.13 |
rpoB | 762588 | p.Thr928Ala | missense_variant | 0.15 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775881 | p.Asn867Ile | missense_variant | 0.29 |
mmpL5 | 777157 | c.1324C>A | synonymous_variant | 0.29 |
mmpL5 | 777164 | c.1317C>T | synonymous_variant | 0.44 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303144 | p.Ser72Pro | missense_variant | 0.5 |
fbiC | 1303155 | c.225G>A | synonymous_variant | 0.33 |
fbiC | 1303494 | p.Leu188Phe | missense_variant | 0.13 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
Rv1258c | 1406192 | c.1149G>A | synonymous_variant | 0.12 |
atpE | 1460916 | c.-129G>A | upstream_gene_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474974 | n.1317G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475227 | n.1570T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475962 | n.2305G>T | non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.25 |
inhA | 1674457 | p.Asn86Tyr | missense_variant | 0.17 |
rpsA | 1834553 | p.Val338Phe | missense_variant | 0.11 |
rpsA | 1834797 | p.Ala419Val | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155290 | p.Lys274Asn | missense_variant | 0.2 |
katG | 2155763 | p.Asp117Tyr | missense_variant | 0.2 |
PPE35 | 2167759 | p.Gly952Cys | missense_variant | 0.17 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.29 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.33 |
PPE35 | 2168150 | c.2463T>C | synonymous_variant | 0.29 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169602 | c.1011C>A | synonymous_variant | 0.14 |
PPE35 | 2169674 | c.939T>C | synonymous_variant | 0.12 |
PPE35 | 2169986 | p.Leu209Ile | missense_variant | 0.17 |
PPE35 | 2170025 | c.588G>A | synonymous_variant | 0.29 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.45 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.42 |
PPE35 | 2170403 | c.210C>G | synonymous_variant | 0.11 |
PPE35 | 2170528 | p.Ser29Ala | missense_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv1979c | 2223352 | c.-188G>A | upstream_gene_variant | 0.2 |
kasA | 2518809 | p.Lys232Arg | missense_variant | 0.4 |
eis | 2715367 | c.-35G>T | upstream_gene_variant | 0.12 |
ahpC | 2726705 | p.Asp171Glu | missense_variant | 0.2 |
ribD | 2986789 | c.-50A>T | upstream_gene_variant | 0.18 |
fbiD | 3339149 | p.Gly11Val | missense_variant | 0.25 |
fbiD | 3339736 | p.Thr207Ala | missense_variant | 0.25 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
fprA | 3473948 | c.-59C>T | upstream_gene_variant | 0.12 |
fprA | 3473965 | c.-42A>G | upstream_gene_variant | 0.12 |
fprA | 3474632 | p.Thr209Lys | missense_variant | 0.17 |
fprA | 3474653 | p.Ala216Val | missense_variant | 0.18 |
fbiB | 3641409 | c.-126G>T | upstream_gene_variant | 0.13 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.19 |
rpoA | 3878158 | c.329_349delTCGTGCCGCCGGCCGGCGTCA | disruptive_inframe_deletion | 0.25 |
rpoA | 3878182 | p.Asp109Gly | missense_variant | 0.22 |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.12 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.14 |
panD | 4044301 | c.-20G>A | upstream_gene_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242875 | p.Glu1005Lys | missense_variant | 0.14 |
embA | 4243408 | p.Thr59Ser | missense_variant | 0.25 |
embA | 4245214 | p.Ala661Val | missense_variant | 0.15 |
embA | 4246106 | c.2878delC | frameshift_variant | 0.17 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.43 |
embB | 4247580 | p.Ala356Asp | missense_variant | 0.2 |
embB | 4248490 | c.1977G>T | synonymous_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |