Run ID: ERR2229186
Sample name:
Date: 31-03-2023 16:47:16
Number of reads: 712735
Percentage reads mapped: 99.16
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 |
---|---|---|---|---|
gyrB | 6232 | c.993C>T | synonymous_variant | 0.22 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 8155 | c.856delT | frameshift_variant | 0.17 |
gyrA | 9782 | c.2481C>T | synonymous_variant | 0.17 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.31 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.36 |
ccsA | 620123 | p.Arg78Pro | missense_variant | 0.17 |
rpoB | 761133 | p.Leu443Val | missense_variant | 0.13 |
rpoB | 761759 | p.Tyr651* | stop_gained | 0.17 |
rpoB | 761821 | p.Ser672Phe | missense_variant | 0.2 |
rpoC | 765078 | p.Ser570Tyr | missense_variant | 0.15 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775909 | p.Leu858Phe | missense_variant | 0.17 |
mmpL5 | 775910 | c.2571G>A | synonymous_variant | 0.17 |
mmpL5 | 775915 | p.Ala856Ser | missense_variant | 0.17 |
mmpL5 | 775918 | p.Val855Ile | missense_variant | 0.17 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.29 |
mmpL5 | 777763 | p.Leu240Met | missense_variant | 0.2 |
mmpL5 | 778910 | c.-430G>T | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1303816 | p.Arg296Gly | missense_variant | 0.2 |
fbiC | 1303984 | p.Asp352Asn | missense_variant | 0.18 |
embR | 1417386 | c.-39T>C | upstream_gene_variant | 0.12 |
atpE | 1461244 | c.202dupC | frameshift_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471881 | n.36A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472722 | n.881delG | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472975 | n.1130T>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475466 | n.1809A>T | non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1673346 | c.-94C>G | upstream_gene_variant | 0.25 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.23 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.26 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.27 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.27 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.51 |
rpsA | 1833425 | c.-117C>A | upstream_gene_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102819 | p.Val75Glu | missense_variant | 0.25 |
katG | 2154325 | p.Asn596Ser | missense_variant | 0.17 |
katG | 2155191 | c.921A>C | synonymous_variant | 0.18 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169013 | p.Val534Leu | missense_variant | 0.38 |
PPE35 | 2169091 | p.Val508Leu | missense_variant | 0.22 |
PPE35 | 2169206 | c.1407A>G | synonymous_variant | 0.13 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.16 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.16 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.29 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.29 |
PPE35 | 2170159 | p.Ala152Ser | missense_variant | 0.13 |
PPE35 | 2170164 | p.Ala150Val | missense_variant | 0.13 |
PPE35 | 2170169 | c.444A>G | synonymous_variant | 0.13 |
PPE35 | 2170175 | p.Leu146Ile | missense_variant | 0.18 |
PPE35 | 2170178 | c.435T>C | synonymous_variant | 0.14 |
PPE35 | 2170189 | p.Glu142Gln | missense_variant | 0.13 |
PPE35 | 2170392 | p.Gly74Ala | missense_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518904 | c.790C>A | synonymous_variant | 0.12 |
kasA | 2519014 | p.Leu300Phe | missense_variant | 0.18 |
pepQ | 2859448 | p.Val324Thr | missense_variant | 0.13 |
pepQ | 2859457 | p.Val321Thr | missense_variant | 0.12 |
pepQ | 2859601 | p.Val273Gly | missense_variant | 0.18 |
ribD | 2986872 | p.Thr12Pro | missense_variant | 0.17 |
Rv2752c | 3066367 | c.-176G>A | upstream_gene_variant | 0.25 |
thyX | 3067799 | p.Lys49Asn | missense_variant | 0.18 |
thyA | 3074518 | c.-47G>A | upstream_gene_variant | 0.12 |
fbiD | 3339364 | p.Pro83Ala | missense_variant | 0.2 |
fbiD | 3339749 | p.Val211Ala | missense_variant | 0.29 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.38 |
Rv3236c | 3612509 | p.Gly203Val | missense_variant | 0.25 |
Rv3236c | 3612612 | p.Phe169Ile | missense_variant | 0.15 |
Rv3236c | 3613097 | p.Leu7Arg | missense_variant | 0.29 |
alr | 3840801 | p.Ile207Thr | missense_variant | 0.12 |
alr | 3840912 | c.508delG | frameshift_variant | 0.13 |
alr | 3841222 | p.Ala67Pro | missense_variant | 0.11 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.18 |
rpoA | 3877597 | p.Leu304Pro | missense_variant | 0.11 |
ddn | 3986680 | c.-164C>A | upstream_gene_variant | 0.13 |
clpC1 | 4039161 | p.His515Gly | missense_variant | 0.14 |
clpC1 | 4039169 | p.Glu512Asp | missense_variant | 0.25 |
embC | 4240156 | p.Gln98His | missense_variant | 0.11 |
embC | 4240551 | p.Lys230Met | missense_variant | 0.13 |
embC | 4241783 | c.1923delG | frameshift_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243256 | c.24A>T | synonymous_variant | 0.14 |
embA | 4245922 | p.Gly897Asp | missense_variant | 0.2 |
embB | 4246418 | c.-96G>T | upstream_gene_variant | 0.14 |
embB | 4246765 | c.252G>A | synonymous_variant | 0.2 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.4 |
embB | 4247470 | c.957T>C | synonymous_variant | 0.14 |
embB | 4247472 | p.Phe320Tyr | missense_variant | 0.14 |
embB | 4248233 | p.Leu574Met | missense_variant | 0.15 |
ethR | 4328111 | p.Ala188Gly | missense_variant | 0.27 |
ethR | 4328113 | c.565_566insAATGAC | stop_gained&disruptive_inframe_insertion | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |