©2022-2025 Deplancke lab, EPFL, 1015 Lausanne
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| By genomic position | |
| Variant impact | |
| Gene name |
| Involved in binding site | |
| Binding site |
GWAS results were computed on dm3 genome.
If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype:
DGRP2 results
PLINK2 results
Phenotype distribution and association to known covariates
Shapiro-Wilk test of normality (p-value=7.021e-2)
Null hypothesis is not rejected (p>0.05).
Interpretation: NORMAL distribution of this phenotype
Null hypothesis is not rejected (p>0.05).
Interpretation: NORMAL distribution of this phenotype
We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using
both ANOVA and Kruskal-Wallis association tests.
ANOVA test
No significant result.
No significant result.
Kruskal-Wallis test
No significant result.
No significant result.
GWAS results
1577
significant hits at p-value < 0.001.
The 1000 top results are displayed in the table below.
We performed a gene enrichment calculation (Fisher's exact test) of all GWAS-associated genes at p < 0.001.
Genesets were taken from two database: the Gene Ontology (GO) and the FlyBase phenotypes.
GO enrichment
FlyBase phenotype enrichment
Variant impact HIGH MODERATE LOW MODIFIER
| Chromosome | Position | ID | Reference | Variant | p-value | FDR_BH | Transcript annotation | Binding site annotation | |
|---|---|---|---|---|---|---|---|---|---|
| 3L | 10388818 | 3L_10388818_SNP [dm3] 3L_10395718_SNP [dm6] | G | T | 6.449e-6 | 1 |
INTERGENIC
|
||
| 3R | 21593094 | 3R_21593094_SNP [dm3] 3R_25767372_SNP [dm6] | A | G | 6.724e-6 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi
|
|
| X | 20537018 | X_20537018_SNP [dm3] X_20665991_SNP [dm6] | A | G | 6.754e-6 | 1 |
INTRON
CG1835 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| X | 4294432 | X_4294432_SNP [dm3] X_4400399_SNP [dm6] | A | G | 7.137e-6 | 1 |
INTRON
CR32773 |
||
| 2R | 7900464 | 2R_7900464_SNP [dm3] 2R_12012959_SNP [dm6] | G | A | 7.297e-6 | 1 |
INTRON
otk |
TF binding site
mE1_TFBS_Kr
|
|
| 3L | 5376359 | 3L_5376359_SNP [dm3] 3L_5383259_SNP [dm6] | A | G | 7.790e-6 | 1 |
UPSTREAM
Ir64a INTERGENIC |
||
| X | 20537062 | X_20537062_SNP [dm3] X_20666035_SNP [dm6] | T | C | 1.036e-5 | 1 |
INTRON
CG1835 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| X | 16929515 | X_16929515_SNP [dm3] X_17035482_SNP [dm6] | T | A | 1.056e-5 | 1 |
INTRON
CG45002 |
||
| X | 20537097 | X_20537097_SNP [dm3] X_20666070_SNP [dm6] | A | G | 1.101e-5 | 1 |
INTRON
CG1835 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| 3L | 762473 | 3L_762473_SNP [dm3] 3L_762473_SNP [dm6] | A | G | 1.326e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_eve mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 2R | 7910142 | 2R_7910142_SNP [dm3] 2R_12022637_SNP [dm6] | T | C | 1.449e-5 | 1 |
DOWNSTREAM
CG8964 INTERGENIC |
||
| X | 15118226 | X_15118226_SNP [dm3] X_15224193_SNP [dm6] | T | C | 1.606e-5 | 1 |
UPSTREAM
CG43076 INTERGENIC |
||
| X | 7464256 | X_7464256_SNP [dm3] X_7570223_SNP [dm6] | G | A | 1.758e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da
|
|
| 2R | 7910145 | 2R_7910145_SNP [dm3] 2R_12022640_SNP [dm6] | C | T | 1.831e-5 | 1 |
DOWNSTREAM
CG8964 INTERGENIC |
||
| 2R | 7919988 | 2R_7919988_SNP [dm3] 2R_12032483_SNP [dm6] | C | T | 1.929e-5 | 1 |
INTRON
pds5 |
||
| 2R | 7924517 | 2R_7924517_SNP [dm3] 2R_12037012_SNP [dm6] | T | C | 2.060e-5 | 1 |
NON_SYNONYMOUS_CODING
CG43191 UPSTREAM 128up DOWNSTREAM CG8321 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 2R | 7919982 | 2R_7919982_SNP [dm3] 2R_12032477_SNP [dm6] | C | T | 2.114e-5 | 1 |
INTRON
pds5 |
||
| 3R | 12713234 | 3R_12713234_SNP [dm3] 3R_16887512_SNP [dm6] | A | C | 2.304e-5 | 1 |
INTRON
iab-8 |
TF binding site
BDTNP1_TFBS_dl mE1_TFBS_cad
|
|
| 3L | 18245836 | 3L_18245836_SNP [dm3] 3L_18252736_SNP [dm6] | G | T | 2.355e-5 | 1 |
UTR_3_PRIME
CheA75a |
||
| 3L | 10389094 | 3L_10389094_SNP [dm3] 3L_10395994_SNP [dm6] | G | A | 2.366e-5 | 1 |
INTERGENIC
|
||
| 3L | 10385751 | 3L_10385751_SNP [dm3] 3L_10392651_SNP [dm6] | T | A | 2.384e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_prd
|
|
| X | 20536912 | X_20536912_SNP [dm3] X_20665885_SNP [dm6] | T | C | 2.415e-5 | 1 |
INTRON
CG1835 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| 2L | 3973800 | 2L_3973800_SNP [dm3] 2L_3973800_SNP [dm6] | T | A | 2.583e-5 | 1 |
INTRON
fred |
||
| 2L | 5674145 | 2L_5674145_INS [dm3] 2L_5674145_INS [dm6] | A | AA | 2.632e-5 | 1 |
INTERGENIC
|
||
| 3R | 10700487 | 3R_10700487_DEL [dm3] 3R_14874765_DEL [dm6] | AA | A | 2.638e-5 | 1 |
INTRON
btsz |
||
| 2R | 7810367 | 2R_7810367_SNP [dm3] 2R_11922862_SNP [dm6] | T | A | 2.700e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA
|
|
| 3L | 18245832 | 3L_18245832_SNP [dm3] 3L_18252732_SNP [dm6] | A | C | 2.781e-5 | 1 |
UTR_3_PRIME
CheA75a |
||
| 3R | 24676976 | 3R_24676976_SNP [dm3] 3R_28851254_SNP [dm6] | G | A | 2.788e-5 | 1 |
INTRON
spg |
||
| 2R | 7920745 | 2R_7920745_SNP [dm3] 2R_12033240_SNP [dm6] | C | A | 2.790e-5 | 1 |
UTR_3_PRIME
pds5 UPSTREAM CG8321 |
||
| X | 19975235 | X_19975235_SNP [dm3] X_20081202_SNP [dm6] | T | C | 2.832e-5 | 1 |
INTERGENIC
|
||
| 2R | 17443585 | 2R_17443585_SNP [dm3] 2R_21556080_SNP [dm6] | T | C | 2.841e-5 | 1 |
SYNONYMOUS_CODING
Egfr |
TF binding site
mE1_TFBS_cad mE1_TFBS_HSA
|
|
| X | 4294291 | X_4294291_SNP [dm3] X_4400258_SNP [dm6] | G | A | 2.848e-5 | 1 |
INTRON
CR32773 |
||
| 2L | 9550080 | 2L_9550080_SNP [dm3] 2L_9550080_SNP [dm6] | T | G | 2.859e-5 | 1 |
INTRON
jp |
TF binding site
mE1_TFBS_cad
|
|
| 2L | 22597886 | 2L_22597886_SNP [dm3] 2L_22705154_SNP [dm6] | A | G | 3.127e-5 | 1 |
INTRON
CG40006 |
||
| X | 15118041 | X_15118041_SNP [dm3] X_15224008_SNP [dm6] | G | A | 3.174e-5 | 1 |
UPSTREAM
CG43076 INTERGENIC |
||
| 2L | 9550039 | 2L_9550039_SNP [dm3] 2L_9550039_SNP [dm6] | T | G | 3.241e-5 | 1 |
INTRON
jp |
TF binding site
mE1_TFBS_cad
|
|
| X | 4294385 | X_4294385_SNP [dm3] X_4400352_SNP [dm6] | C | T | 3.264e-5 | 1 |
INTRON
CR32773 |
||
| 2L | 10468950 | 2L_10468950_SNP [dm3] 2L_10468950_SNP [dm6] | A | G | 3.279e-5 | 1 |
INTRON
RluA-1 |
||
| 3L | 5259481 | 3L_5259481_SNP [dm3] 3L_5266381_SNP [dm6] | G | A | 3.312e-5 | 1 |
INTRON
shep |
||
| 2R | 9364307 | 2R_9364307_SNP [dm3] 2R_13476802_SNP [dm6] | G | C | 3.331e-5 | 1 |
UPSTREAM
CG43192 INTRON arr |
||
| 2R | 9189666 | 2R_9189666_SNP [dm3] 2R_13302161_SNP [dm6] | C | G | 3.335e-5 | 1 |
DOWNSTREAM
CG17047 INTERGENIC |
||
| 2R | 10000920 | 2R_10000920_SNP [dm3] 2R_14113415_SNP [dm6] | A | G | 3.347e-5 | 1 |
INTRON
Prosap |
TF binding site
mE1_TFBS_bab1
|
|
| X | 6608532 | X_6608532_SNP [dm3] X_6714499_SNP [dm6] | C | T | 3.398e-5 | 1 |
SYNONYMOUS_CODING
CG14441 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_chinmo mE1_TFBS_HSA
|
|
| 3R | 24847048 | 3R_24847048_SNP [dm3] 3R_29021326_SNP [dm6] | A | T | 3.487e-5 | 1 |
UPSTREAM
wat EXON CR44264 |
||
| 2L | 5410442 | 2L_5410442_SNP [dm3] 2L_5410442_SNP [dm6] | C | T | 3.540e-5 | 1 |
INTRON
H15 |
TF binding site
BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_shn BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_tll BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
|
|
| 3L | 854512 | 3L_854512_SNP [dm3] 3L_854512_SNP [dm6] | A | T | 3.635e-5 | 1 |
INTRON
dpr20 |
TF binding site
mE1_TFBS_cad
|
|
| 2R | 7935363 | 2R_7935363_SNP [dm3] 2R_12047858_SNP [dm6] | T | A | 3.718e-5 | 1 |
INTRON
Drep-1 |
||
| 3L | 10389960 | 3L_10389960_SNP [dm3] 3L_10396860_SNP [dm6] | C | A | 3.748e-5 | 1 |
INTERGENIC
|
||
| X | 3383841 | X_3383841_SNP [dm3] X_3489808_SNP [dm6] | T | G | 3.818e-5 | 1 |
UTR_3_PRIME
CG10803 DOWNSTREAM CG10803 INTRON CR44999 |
TF binding site
mE1_TFBS_GATAe mE1_TFBS_HSA
|
|
| X | 16929589 | X_16929589_SNP [dm3] X_17035556_SNP [dm6] | T | C | 3.952e-5 | 1 |
INTRON
CG45002 |
||
| 3L | 10385453 | 3L_10385453_SNP [dm3] 3L_10392353_SNP [dm6] | C | T | 4.300e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_prd BDTNP1_TFBS_twi
|
|
| X | 10308551 | X_10308551_SNP [dm3] X_10414518_SNP [dm6] | G | A | 4.322e-5 | 1 |
INTRON
CG32683 |
||
| 3R | 21481724 | 3R_21481724_SNP [dm3] 3R_25656002_SNP [dm6] | A | G | 4.462e-5 | 1 |
SYNONYMOUS_CODING
Tnks |
TF binding site
mE1_TFBS_chinmo
|
|
| 2L | 13342495 | 2L_13342495_SNP [dm3] 2L_13342495_SNP [dm6] | A | G | 4.482e-5 | 1 |
INTERGENIC
|
||
| 3R | 13513773 | 3R_13513773_SNP [dm3] 3R_17688051_SNP [dm6] | C | T | 4.541e-5 | 1 |
UTR_3_PRIME
osa UPSTREAM CG31249 |
||
| X | 4294490 | X_4294490_SNP [dm3] X_4400457_SNP [dm6] | A | T | 4.804e-5 | 1 |
INTRON
CR32773 |
||
| 2L | 16607534 | 2L_16607534_SNP [dm3] 2L_16607534_SNP [dm6] | G | C | 4.816e-5 | 1 |
SYNONYMOUS_CODING
CG4631 DOWNSTREAM CG31815 INTRON CG42389 |
||
| 3L | 8876119 | 3L_8876119_SNP [dm3] 3L_8883019_SNP [dm6] | A | C | 4.851e-5 | 1 |
INTRON
dally |
||
| 3R | 23255613 | 3R_23255613_SNP [dm3] 3R_27429891_SNP [dm6] | C | A | 5.080e-5 | 1 |
INTRON
side |
||
| 3L | 2720430 | 3L_2720430_SNP [dm3] 3L_2720430_SNP [dm6] | T | C | 5.087e-5 | 1 |
SYNONYMOUS_CODING
Mrtf |
TF binding site
mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
|
|
| 3R | 5486525 | 3R_5486525_SNP [dm3] 3R_9660803_SNP [dm6] | T | A | 5.142e-5 | 1 |
INTRON
CG9492 |
||
| 2R | 7919943 | 2R_7919943_SNP [dm3] 2R_12032438_SNP [dm6] | G | A | 5.268e-5 | 1 |
SYNONYMOUS_CODING
pds5 |
||
| 3L | 5185716 | 3L_5185716_DEL [dm3] 3L_5192616_DEL [dm6] | GTG | G | 5.373e-5 | 1 |
INTRON
shep |
||
| X | 21118832 | X_21118832_SNP [dm3] X_21247805_SNP [dm6] | A | T | 5.467e-5 | 1 |
INTRON
CG32521 |
||
| 3R | 27384939 | 3R_27384939_SNP [dm3] 3R_31559217_SNP [dm6] | A | C | 5.508e-5 | 1 |
INTRON
nyo |
||
| X | 12891957 | X_12891957_DEL [dm3] X_12997924_DEL [dm6] | CC | T | 5.555e-5 | 1 |
INTRON
rad |
||
| 3R | 6015387 | 3R_6015387_SNP [dm3] 3R_10189665_SNP [dm6] | G | A | 5.590e-5 | 1 |
UPSTREAM
CG12814 INTERGENIC |
TF binding site
BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_Trl
|
|
| 3R | 26232225 | 3R_26232225_INS [dm3] 3R_30406503_INS [dm6] | G | GCCG | 5.693e-5 | 1 |
INTERGENIC
|
||
| 2L | 11264860 | 2L_11264860_SNP [dm3] 2L_11264860_SNP [dm6] | G | T | 5.698e-5 | 1 |
NON_SYNONYMOUS_CODING
cmet |
TF binding site
mE1_TFBS_sens
|
|
| 2L | 16607525 | 2L_16607525_SNP [dm3] 2L_16607525_SNP [dm6] | C | A | 5.731e-5 | 1 |
SYNONYMOUS_CODING
CG4631 DOWNSTREAM CG31815 INTRON CG42389 |
||
| 2L | 16607531 | 2L_16607531_SNP [dm3] 2L_16607531_SNP [dm6] | C | T | 5.735e-5 | 1 |
SYNONYMOUS_CODING
CG4631 DOWNSTREAM CG31815 INTRON CG42389 |
||
| 3L | 1524594 | 3L_1524594_SNP [dm3] 3L_1524594_SNP [dm6] | C | A | 5.880e-5 | 1 |
INTRON
CG12090 |
||
| 2R | 17689153 | 2R_17689153_SNP [dm3] 2R_21801648_SNP [dm6] | C | A | 5.909e-5 | 1 |
UPSTREAM
CG4386 INTERGENIC |
||
| X | 7464254 | X_7464254_SNP [dm3] X_7570221_SNP [dm6] | C | G | 5.980e-5 | 1 |
INTERGENIC
|
TF binding site
BDTNP1_TFBS_da
|
|
| 3L | 7964026 | 3L_7964026_SNP [dm3] 3L_7970926_SNP [dm6] | A | G | 5.987e-5 | 1 |
INTRON
RNaseX25 |
TF binding site
BDTNP1_TFBS_Med mE1_TFBS_D mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 2L | 7266478 | 2L_7266478_SNP [dm3] 2L_7266478_SNP [dm6] | A | G | 6.009e-5 | 1 |
INTRON
Wnt4 |
TF binding site
BDTNP1_TFBS_twi
|
|
| X | 16929617 | X_16929617_SNP [dm3] X_17035584_SNP [dm6] | G | T | 6.430e-5 | 1 |
INTRON
CG45002 |
||
| X | 15118062 | X_15118062_SNP [dm3] X_15224029_SNP [dm6] | G | C | 6.449e-5 | 1 |
UPSTREAM
CG43076 INTERGENIC |
||
| 3R | 6750442 | 3R_6750442_SNP [dm3] 3R_10924720_SNP [dm6] | A | G | 6.497e-5 | 1 |
INTERGENIC
|
||
| X | 3383913 | X_3383913_INS [dm3] X_3489880_INS [dm6] | T | TAACCTCT | 6.737e-5 | 1 |
UTR_3_PRIME
CG10803 DOWNSTREAM CG10803 INTRON CR44999 |
TF binding site
mE1_TFBS_GATAe mE1_TFBS_HSA
|
|
| X | 3383923 | X_3383923_SNP [dm3] X_3489890_SNP [dm6] | A | G | 6.737e-5 | 1 |
UTR_3_PRIME
CG10803 DOWNSTREAM CG10803 INTRON CR44999 |
TF binding site
mE1_TFBS_HSA
|
|
| X | 20536936 | X_20536936_SNP [dm3] X_20665909_SNP [dm6] | C | A | 6.863e-5 | 1 |
INTRON
CG1835 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_twi
|
|
| 2R | 16755122 | 2R_16755122_SNP [dm3] 2R_20867617_SNP [dm6] | A | G | 6.910e-5 | 1 |
DOWNSTREAM
CG15227 & 1 other INTERGENIC |
||
| 3L | 5185707 | 3L_5185707_SNP [dm3] 3L_5192607_SNP [dm6] | C | T | 6.997e-5 | 1 |
INTRON
shep |
||
| 2L | 3816477 | 2L_3816477_SNP [dm3] 2L_3816477_SNP [dm6] | T | C | 7.032e-5 | 1 |
DOWNSTREAM
CR44076 INTERGENIC |
regulatory region
REDfly_CRMs
TF binding site BDTNP1_TFBS_twi |
|
| 2L | 12268935 | 2L_12268935_SNP [dm3] 2L_12268935_SNP [dm6] | A | T | 7.059e-5 | 1 |
INTRON
aret |
||
| 2R | 17443882 | 2R_17443882_SNP [dm3] 2R_21556377_SNP [dm6] | A | T | 7.081e-5 | 1 |
INTRON
Egfr |
TF binding site
mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
|
|
| 2L | 18242534 | 2L_18242534_SNP [dm3] 2L_18242534_SNP [dm6] | A | T | 7.364e-5 | 1 |
INTRON
CG42750 |
||
| 2L | 12055594 | 2L_12055594_SNP [dm3] 2L_12055594_SNP [dm6] | T | G | 7.515e-5 | 1 |
UPSTREAM
RpL7-like & 2 others INTRON JhI-21 |
TF binding site
BDTNP1_TFBS_dl BDTNP1_TFBS_Med mE1_TFBS_cad mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_jumu mE1_TFBS_sens mE1_TFBS_Trl
|
|
| 3R | 6875921 | 3R_6875921_SNP [dm3] 3R_11050199_SNP [dm6] | A | G | 7.617e-5 | 1 |
DOWNSTREAM
CG34114 INTERGENIC |
||
| 3L | 21761867 | 3L_21761867_SNP [dm3] 3L_21768767_SNP [dm6] | A | T | 7.732e-5 | 1 |
INTRON
Syn1 & 1 other |
transposable element
FlyBase
|
|
| 3R | 13650720 | 3R_13650720_INS [dm3] 3R_17824998_INS [dm6] | A | AA | 7.778e-5 | 1 |
INTRON
tinc |
||
| 3L | 1456087 | 3L_1456087_SNP [dm3] 3L_1456087_SNP [dm6] | A | G | 7.820e-5 | 1 |
INTRON
Ptp61F |
regulatory region
REDfly_CRMs
TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA mE1_TFBS_sens |
|
| 3R | 4642751 | 3R_4642751_DEL [dm3] 3R_8817029_DEL [dm6] | TA | T | 7.830e-5 | 1 |
UTR_3_PRIME
CG9821 DOWNSTREAM CG9821 |
||
| 2R | 17620033 | 2R_17620033_SNP [dm3] 2R_21732528_SNP [dm6] | T | C | 7.836e-5 | 1 |
INTERGENIC
|
||
| 2L | 18242977 | 2L_18242977_DEL [dm3] 2L_18242977_DEL [dm6] | CTGTGAAAA | C | 7.866e-5 | 1 |
INTRON
CG42750 |
||
| 3L | 10797406 | 3L_10797406_SNP [dm3] 3L_10804306_SNP [dm6] | G | T | 7.899e-5 | 1 |
DOWNSTREAM
CR44347 EXON CR44347 |
||
| 3R | 24676998 | 3R_24676998_SNP [dm3] 3R_28851276_SNP [dm6] | T | C | 7.931e-5 | 1 |
INTRON
spg |
||
| 2L | 10468772 | 2L_10468772_SNP [dm3] 2L_10468772_SNP [dm6] | C | A | 8.009e-5 | 1 |
INTRON
RluA-1 |
||
| 2L | 10468778 | 2L_10468778_DEL [dm3] 2L_10468778_DEL [dm6] | TTTGCATAT | C | 8.009e-5 | 1 |
INTRON
RluA-1 |
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