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.gitattributes CHANGED
@@ -127,3 +127,6 @@ chromatin_access/sorghum_bicolor_test.fa filter=lfs diff=lfs merge=lfs -text
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  pro_seq/m_esculenta_test.fa filter=lfs diff=lfs merge=lfs -text
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  pro_seq/m_esculenta_train.fa filter=lfs diff=lfs merge=lfs -text
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  pro_seq/m_esculenta_validation.fa filter=lfs diff=lfs merge=lfs -text
 
 
 
 
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  pro_seq/m_esculenta_test.fa filter=lfs diff=lfs merge=lfs -text
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  pro_seq/m_esculenta_train.fa filter=lfs diff=lfs merge=lfs -text
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  pro_seq/m_esculenta_validation.fa filter=lfs diff=lfs merge=lfs -text
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+ Figures/Fig2_paneld1.txt filter=lfs diff=lfs merge=lfs -text
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+ Figures/Fig2_paneld2.txt filter=lfs diff=lfs merge=lfs -text
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+ Figures/Fig5_panela.txt filter=lfs diff=lfs merge=lfs -text
Figures/Fig2_panela.txt ADDED
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+ Species Feature Num
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+ A. thaliana 3'UTR 24315
3
+ A. thaliana 5'UTR 3827
4
+ A. thaliana CDS 21226
5
+ A. thaliana exon 950
6
+ A. thaliana intron 9144
7
+ A. thaliana 3'UTRext 7613
8
+ C. reinhardtii 3'UTR 21535
9
+ C. reinhardtii 5'UTR 816
10
+ C. reinhardtii CDS 1112
11
+ C. reinhardtii exon 0
12
+ C. reinhardtii intron 883
13
+ C. reinhardtii 3'UTRext 9294
14
+ M. truncatula 3'UTR 8734
15
+ M. truncatula 5'UTR 470
16
+ M. truncatula CDS 3278
17
+ M. truncatula exon 0
18
+ M. truncatula intron 1871
19
+ M. truncatula 3'UTRext 4356
20
+ O. sativa (Ind) 3'UTR 0
21
+ O. sativa (Ind) 5'UTR 0
22
+ O. sativa (Ind) CDS 1057
23
+ O. sativa (Ind) exon 0
24
+ O. sativa (Ind) intron 5556
25
+ O. sativa (Ind) 3'UTRext 31693
26
+ O. sativa (Jap) 3'UTR 17888
27
+ O. sativa (Jap) 5'UTR 744
28
+ O. sativa (Jap) CDS 1443
29
+ O. sativa (Jap) exon 0
30
+ O. sativa (Jap) intron 4927
31
+ O. sativa (Jap) 3'UTRext 21949
32
+ T. pratense 3'UTR 15411
33
+ T. pratense 5'UTR 800
34
+ T. pratense CDS 9726
35
+ T. pratense exon 170
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+ T. pratense intron 5291
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+ T. pratense 3'UTRext 10301
Figures/Fig2_panelb1.txt ADDED
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+ Chrom Label Count
2
+ chr1 non-acceptor 563764
3
+ chr1 acceptor 20011
4
+ chr2 non-acceptor 333524
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+ chr2 acceptor 11764
6
+ chr3 non-acceptor 426301
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+ chr3 acceptor 15063
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+ chr4 non-acceptor 322825
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+ chr4 acceptor 11592
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+ chr5 non-acceptor 511484
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+ chr5 acceptor 18441
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+ chr1 non-donor 866124
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+ chr1 donor 19970
14
+ chr2 non-donor 513532
15
+ chr2 donor 11725
16
+ chr3 non-donor 655110
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+ chr3 donor 15017
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+ chr4 non-donor 494988
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+ chr4 donor 11568
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+ chr5 non-donor 782180
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+ chr5 donor 18379
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1
+ Species Model Type R2
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+ A. thaliana Maize model AgroNT 0.62
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+ S. bicolor Maize model AgroNT 0.68
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+ Z. mays Maize model AgroNT 0.71
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+ A. thaliana Tobacco model AgroNT 0.62
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+ S. bicolor Tobacco model AgroNT 0.74
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+ Z. mays Tobacco model AgroNT 0.75
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+ A. thaliana Maize model CNN (Jores et al.) 0.58
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+ S. bicolor Maize model CNN (Jores et al.) 0.65
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+ Z. mays Maize model CNN (Jores et al.) 0.69
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+ A. thaliana Tobacco model CNN (Jores et al.) 0.57
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+ S. bicolor Tobacco model CNN (Jores et al.) 0.71
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+ Z. mays Tobacco model CNN (Jores et al.) 0.73
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+ Species Model Type R2
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+ A. thaliana Maize model AgroNT 0.69
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+ GC Maize model AgroNT 0.68
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+ Z. mays Maize model AgroNT 0.65
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+ A. thaliana Tobacco model AgroNT 0.77
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+ GC Tobacco model AgroNT 0.67
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+ Z. mays Tobacco model AgroNT 0.76
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+ A. thaliana Maize model CNN (Gorjifard et al.) 0.68
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+ GC Maize model CNN (Gorjifard et al.) 0.64
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+ Z. mays Maize model CNN (Gorjifard et al.) 0.67
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+ A. thaliana Tobacco model CNN (Gorjifard et al.) 0.77
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+ GC Tobacco model CNN (Gorjifard et al.) 0.65
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+ Z. mays Tobacco model CNN (Gorjifard et al.) 0.76
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+ Species Tissue Method AUC
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+ Z. mays Zmays_ear_big_bottom_1 AgroNT 0.981893775458721
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+ Z. mays Zmays_ear_big_bottom_1 DeepSEA 0.9807
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+ Z. mays Zmays_ear_big_bottom_2 AgroNT 0.983912174594928
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+ Z. mays Zmays_ear_big_bottom_2 DeepSEA 0.9828
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+ Z. mays Zmays_ear_big_top_1 AgroNT 0.980965753226404
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+ Z. mays Zmays_ear_big_top_1 DeepSEA 0.9802
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+ Z. mays Zmays_ear_big_top_2 AgroNT 0.983192363826982
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+ Z. mays Zmays_ear_big_top_2 DeepSEA 0.9826
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+ Z. mays Zmays_ear_small_1 AgroNT 0.981633119983466
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+ Z. mays Zmays_ear_small_1 DeepSEA 0.98
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+ Z. mays Zmays_ear_small_2 AgroNT 0.981918011278322
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+ Z. mays Zmays_ear_small_2 DeepSEA 0.9815
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+ Z. mays Zmays_flag_leaf_1 AgroNT 0.979817688893831
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+ Z. mays Zmays_flag_leaf_1 DeepSEA 0.9823
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+ Z. mays Zmays_flag_leaf_2 AgroNT 0.979793357683983
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+ Z. mays Zmays_flag_leaf_2 DeepSEA 0.9823
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+ Z. mays Zmays_flower_1 AgroNT 0.986516769179244
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+ Z. mays Zmays_flower_1 DeepSEA 0.9827
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+ Z. mays Zmays_flower_2 AgroNT 0.986648079267573
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+ Z. mays Zmays_flower_2 DeepSEA 0.9888
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+ Z. mays Zmays_root_1 AgroNT 0.98366877408458
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+ Z. mays Zmays_root_1 DeepSEA 0.9847
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+ Z. mays Zmays_root_2 AgroNT 0.983761544892374
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+ Z. mays Zmays_root_2 DeepSEA 0.9862
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+ Z. mays Zmays_root_3 AgroNT 0.978893882607849
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+ Z. mays Zmays_root_3 DeepSEA 0.9813
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+ Z. mays Zmays_tassel_bottom_1 AgroNT 0.984366920979795
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+ Z. mays Zmays_tassel_bottom_1 DeepSEA 0.9835
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+ Z. mays Zmays_tassel_bottom_2 AgroNT 0.983714655209693
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+ Z. mays Zmays_tassel_bottom_2 DeepSEA 0.9826
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+ Z. mays Zmays_tassel_top_1 AgroNT 0.981452565673348
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+ Z. mays Zmays_tassel_top_1 DeepSEA 0.9823
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+ Z. mays Zmays_young_leaf_1 AgroNT 0.984966182571289
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+ Z. mays Zmays_young_leaf_1 DeepSEA 0.9866
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+ Z. mays Zmays_young_leaf_2 AgroNT 0.986670289174259
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+ Z. mays Zmays_young_leaf_2 DeepSEA 0.988
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+ Z. mays Zmays_young_leaf_3 AgroNT 0.978924277113606
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+ Z. mays Zmays_young_leaf_3 DeepSEA 0.9814
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+ S. italica Sitalica_flag_leaf_1 AgroNT 0.944024138159233
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+ S. italica Sitalica_flag_leaf_1 DeepSEA 0.9475
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+ S. italica Sitalica_flag_leaf_2 AgroNT 0.944368499972782
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+ S. italica Sitalica_flag_leaf_2 DeepSEA 0.9491
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+ S. italica Sitalica_flower_1 AgroNT 0.95310049075726
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+ S. italica Sitalica_flower_1 DeepSEA 0.9497
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+ S. italica Sitalica_flower_2 AgroNT 0.953664147176581
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+ S. italica Sitalica_flower_2 DeepSEA 0.9492
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+ S. italica Sitalica_panicle_1 AgroNT 0.953544404251039
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+ S. italica Sitalica_panicle_1 DeepSEA 0.9489
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+ S. italica Sitalica_panicle_2 AgroNT 0.956185429551665
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+ S. italica Sitalica_panicle_2 DeepSEA 0.9515
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+ S. italica Sitalica_root_1 AgroNT 0.982534830071808
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+ S. italica Sitalica_root_1 DeepSEA 0.9806
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+ S. italica Sitalica_young_leaf_1 AgroNT 0.970654176829444
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+ S. italica Sitalica_young_leaf_1 DeepSEA 0.9734
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+ S. italica Sitalica_young_leaf_2 AgroNT 0.960840181820109
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+ S. italica Sitalica_young_leaf_2 DeepSEA 0.9611
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+ S. bicolor Sorghum_flag_leaf_1 AgroNT 0.974832701363744
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+ S. bicolor Sorghum_flag_leaf_1 DeepSEA 0.977
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+ S. bicolor Sorghum_flag_leaf_2 AgroNT 0.97042614544364
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+ S. bicolor Sorghum_flag_leaf_2 DeepSEA 0.9753
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+ S. bicolor Sorghum_flower_1 AgroNT 0.968993168619242
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+ S. bicolor Sorghum_flower_1 DeepSEA 0.9721
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+ S. bicolor Sorghum_flower_2 AgroNT 0.969920665370966
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+ S. bicolor Sorghum_flower_2 DeepSEA 0.9714
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+ S. bicolor Sorghum_lemma_1 AgroNT 0.973795562902938
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+ S. bicolor Sorghum_lemma_1 DeepSEA 0.9745
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+ S. bicolor Sorghum_lemma_2 AgroNT 0.966884736086807
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+ S. bicolor Sorghum_lemma_2 DeepSEA 0.972
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+ S. bicolor Sorghum_panicle_bottom_1 AgroNT 0.969094439691713
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+ S. bicolor Sorghum_panicle_bottom_1 DeepSEA 0.9691
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+ S. bicolor Sorghum_panicle_bottom_2 AgroNT 0.963600554336402
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+ S. bicolor Sorghum_panicle_bottom_2 DeepSEA 0.966
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+ S. bicolor Sorghum_panicle_top_1 AgroNT 0.979871200130056
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+ S. bicolor Sorghum_panicle_top_1 DeepSEA 0.9778
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+ S. bicolor Sorghum_panicle_top_2 AgroNT 0.978069551723402
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+ S. bicolor Sorghum_panicle_top_2 DeepSEA 0.9776
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+ S. bicolor Sorghum_root_1 AgroNT 0.990285421719328
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+ S. bicolor Sorghum_root_1 DeepSEA 0.9907
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+ S. bicolor Sorghum_root_2 AgroNT 0.967368650288689
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+ S. bicolor Sorghum_root_2 DeepSEA 0.9671
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+ S. bicolor Sorghum_young_leaf_1 AgroNT 0.983546550899923
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+ S. bicolor Sorghum_young_leaf_1 DeepSEA 0.9841
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+ S. bicolor Sorghum_young_leaf_2 AgroNT 0.985633959206328
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+ S. bicolor Sorghum_young_leaf_2 DeepSEA 0.9856
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+ O. sativa MH63_flag_leaf_1 AgroNT 0.953557915779257
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+ O. sativa MH63_flag_leaf_1 DeepSEA 0.9345
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+ O. sativa MH63_flag_leaf_2 AgroNT 0.949630325952582
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+ O. sativa MH63_flag_leaf_2 DeepSEA 0.9508
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+ O. sativa MH63_flower_1 AgroNT 0.941272640332567
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+ O. sativa MH63_flower_1 DeepSEA 0.9746
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+ O. sativa MH63_flower_2 AgroNT 0.940889495879432
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+ O. sativa MH63_flower_2 DeepSEA 0.981
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+ O. sativa MH63_lemma_1 AgroNT 0.960587051768769
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+ O. sativa MH63_lemma_1 DeepSEA 0.9458
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+ O. sativa MH63_lemma_2 AgroNT 0.955992283046744
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+ O. sativa MH63_lemma_2 DeepSEA 0.9478
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+ O. sativa MH63_panicle_1 AgroNT 0.96694647990786
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+ O. sativa MH63_panicle_1 DeepSEA 0.9636
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+ O. sativa MH63_panicle_2 AgroNT 0.976575958888608
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+ O. sativa MH63_panicle_2 DeepSEA 0.9686
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+ O. sativa MH63_panicle_3 AgroNT 0.967295262054253
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+ O. sativa MH63_panicle_3 DeepSEA 0.9708
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+ O. sativa MH63_panicle_4 AgroNT 0.962823534116396
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+ O. sativa MH63_panicle_4 DeepSEA 0.9573
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+ O. sativa MH63_panicle_5 AgroNT 0.961028854238987
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+ O. sativa MH63_panicle_5 DeepSEA 0.9588
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+ O. sativa MH63_root_1 AgroNT 0.95042864895822
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+ O. sativa MH63_root_1 DeepSEA 0.9535
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+ O. sativa MH63_root_2 AgroNT 0.9524977551959
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+ O. sativa MH63_root_2 DeepSEA 0.9563
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+ O. sativa MH63_young_leaf_1 AgroNT 0.942603068013723
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+ O. sativa MH63_young_leaf_1 DeepSEA 0.9457
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+ O. sativa MH63_young_leaf_2 AgroNT 0.963966771336426
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+ O. sativa MH63_young_leaf_2 DeepSEA 0.952
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+ O. sativa ZS97_flag_leaf_1 AgroNT 0.953557915779257
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+ O. sativa ZS97_flag_leaf_1 DeepSEA 0.95
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+ O. sativa ZS97_flag_leaf_2 AgroNT 0.949630325952582
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+ O. sativa ZS97_flag_leaf_2 DeepSEA 0.9468
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+ O. sativa ZS97_flower_1 AgroNT 0.941272640332567
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+ O. sativa ZS97_flower_1 DeepSEA 0.9383
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+ O. sativa ZS97_flower_2 AgroNT 0.940889495879432
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+ O. sativa ZS97_flower_2 DeepSEA 0.9382
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+ O. sativa ZS97_lemma_1 AgroNT 0.960587051768769
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+ O. sativa ZS97_lemma_1 DeepSEA 0.9599
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+ O. sativa ZS97_lemma_2 AgroNT 0.955992283046744
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+ O. sativa ZS97_lemma_2 DeepSEA 0.9563
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+ O. sativa ZS97_panicle_1 AgroNT 0.96694647990786
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+ O. sativa ZS97_panicle_1 DeepSEA 0.9616
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+ O. sativa ZS97_panicle_2 AgroNT 0.976575958888608
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+ O. sativa ZS97_panicle_2 DeepSEA 0.9738
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+ O. sativa ZS97_panicle_3 AgroNT 0.967295262054253
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+ O. sativa ZS97_panicle_3 DeepSEA 0.9646
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+ O. sativa ZS97_panicle_4 AgroNT 0.962823534116396
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+ O. sativa ZS97_panicle_4 DeepSEA 0.959
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+ O. sativa ZS97_panicle_5 AgroNT 0.961028854238987
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+ O. sativa ZS97_panicle_5 DeepSEA 0.955
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+ O. sativa ZS97_root_1 AgroNT 0.95042864895822
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+ O. sativa ZS97_root_1 DeepSEA 0.9495
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+ O. sativa ZS97_root_2 AgroNT 0.9524977551959
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+ O. sativa ZS97_root_2 DeepSEA 0.9504
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+ O. sativa ZS97_young_leaf_1 AgroNT 0.942603068013723
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+ O. sativa ZS97_young_leaf_1 DeepSEA 0.9465
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+ O. sativa ZS97_young_leaf_2 AgroNT 0.963966771336426
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+ O. sativa ZS97_young_leaf_2 DeepSEA 0.9603
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+ B. distachyon flag_leaf_1 AgroNT 0.943395959465956
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+ B. distachyon flag_leaf_1 DeepSEA 0.9386
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+ B. distachyon flag_leaf_2 AgroNT 0.944775955433103
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+ B. distachyon flag_leaf_2 DeepSEA 0.9384
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+ B. distachyon flower_1 AgroNT 0.957222682628638
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+ B. distachyon panicle_1 DeepSEA 0.9529
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+ B. distachyon root_1 AgroNT 0.966645451400899
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+ B. distachyon root_1 DeepSEA 0.9571
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+ B. distachyon root_2 AgroNT 0.957868390949404
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+ B. distachyon root_2 DeepSEA 0.9551
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+ B. distachyon young_leaf_1 AgroNT 0.949881344630109
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+ B. distachyon young_leaf_1 DeepSEA 0.9474
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+ B. distachyon young_leaf_2 AgroNT 0.963195725341801
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+ B. distachyon young_leaf_2 DeepSEA 0.9524
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+ A. thaliana 7days_leaf_rep1 AgroNT 0.924384292823498
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+ A. thaliana 7days_leaf_rep1 DeepSEA 0.9214
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+ A. thaliana 7days_leaf_rep2 AgroNT 0.940838807358043
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+ A. thaliana 7days_leaf_rep2 DeepSEA 0.9397
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+ A. thaliana mesophyll_rep1 AgroNT 0.953978841461623
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+ A. thaliana mesophyll_rep1 DeepSEA 0.9499
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+ A. thaliana mesophyll_rep2 AgroNT 0.952322992209123
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+ A. thaliana mesophyll_rep2 DeepSEA 0.9456
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+ A. thaliana mesophyll_rep3 AgroNT 0.951822940113686
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+ A. thaliana mesophyll_rep3 DeepSEA 0.9493
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+ A. thaliana root_hair_rep1 AgroNT 0.935826444576565
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+ A. thaliana root_hair_rep1 DeepSEA 0.9341
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+ A. thaliana root_hair_rep2 AgroNT 0.948641786084109
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+ A. thaliana root_non_hair_rep2 AgroNT 0.9455757148958
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+ A. thaliana root_non_hair_rep2 DeepSEA 0.9438
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+ A. thaliana root_tip_rep1 AgroNT 0.942864493452685
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+ A. thaliana root_tip_rep1 DeepSEA 0.9515
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+ A. thaliana root_tip_rep2 AgroNT 0.914008370410249
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+ A. thaliana root_tip_rep2 DeepSEA 0.9163
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+ A. thaliana stem_rep1 AgroNT 0.955013217684825
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+ A. thaliana stem_rep1 DeepSEA 0.9502
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+ A. thaliana stem_rep2 AgroNT 0.952474858182249
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+ A. thaliana stem_rep2 DeepSEA 0.949
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+ A. thaliana stem_rep3 AgroNT 0.951076943957884
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+ A. thaliana stem_rep3 DeepSEA 0.9451
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+ Tissue Variation R2
2
+ Root maturation zone 5kb US - 1kb DS 0.646219067243882
3
+ Root elongation zone 5kb US - 1kb DS 0.613524896464522
4
+ Root cortex 5kb US - 1kb DS 0.578358455733256
5
+ Vegetative meristem 5kb US - 1kb DS 0.669993503216862
6
+ Endosperm (12 Days) 5kb US - 1kb DS 0.645464477317545
7
+ Pericarp and aleurone 5kb US - 1kb DS 0.585545958925091
8
+ Endosperm crown 5kb US - 1kb DS 0.592805880599955
9
+ Symmetrical division 5kb US - 1kb DS 0.658537665778199
10
+ Stomatal division 5kb US - 1kb DS 0.649182301402897
11
+ Growth zone 5kb US - 1kb DS 0.639230824745207
12
+ Embryos (20 Days) 5kb US - 1kb DS 0.651077993166241
13
+ Embryos 5kb US - 1kb DS 0.624652469376995
14
+ Germinating kernels 5kb US - 1kb DS 0.619366169146228
15
+ Mature leaf tissue 5kb US - 1kb DS 0.569575368040227
16
+ 6.8 mm from ear tip 5kb US - 1kb DS 0.664358479872003
17
+ 2.4 mm from ear tip 5kb US - 1kb DS 0.668339614777341
18
+ Primary root 5kb US - 1kb DS 0.624541834299598
19
+ Secondary root 5kb US - 1kb DS 0.6291517865226
20
+ Mature pollen 5kb US - 1kb DS 0.406302148902371
21
+ Silks 5kb US - 1kb DS 0.610204476616703
22
+ Mature female spikelets 5kb US - 1kb DS 0.660451870786676
23
+ Internode (6.7) 5kb US - 1kb DS 0.670598103465166
24
+ Internode (7.8) 5kb US - 1kb DS 0.677069027420533
25
+ Root maturation zone 1kb US - 5kb DS 0.685380247188057
26
+ Root elongation zone 1kb US - 5kb DS 0.660089334320339
27
+ Root cortex 1kb US - 5kb DS 0.618404380563478
28
+ Vegetative meristem 1kb US - 5kb DS 0.701258766875842
29
+ Endosperm (12 Days) 1kb US - 5kb DS 0.682376822842004
30
+ Pericarp and aleurone 1kb US - 5kb DS 0.626868906344587
31
+ Endosperm crown 1kb US - 5kb DS 0.631253455951277
32
+ Symmetrical division 1kb US - 5kb DS 0.704309725260427
33
+ Stomatal division 1kb US - 5kb DS 0.689357925511412
34
+ Growth zone 1kb US - 5kb DS 0.683735809853806
35
+ Embryos (20 Days) 1kb US - 5kb DS 0.686186907523153
36
+ Embryos 1kb US - 5kb DS 0.665973906993976
37
+ Germinating kernels 1kb US - 5kb DS 0.666933631719764
38
+ Mature leaf tissue 1kb US - 5kb DS 0.604542688821447
39
+ 6.8 mm from ear tip 1kb US - 5kb DS 0.703620463545164
40
+ 2.4 mm from ear tip 1kb US - 5kb DS 0.707748064905367
41
+ Primary root 1kb US - 5kb DS 0.668010231450032
42
+ Secondary root 1kb US - 5kb DS 0.67491028488731
43
+ Mature pollen 1kb US - 5kb DS 0.420681345188956
44
+ Silks 1kb US - 5kb DS 0.641837225832962
45
+ Mature female spikelets 1kb US - 5kb DS 0.688546636445079
46
+ Internode (6.7) 1kb US - 5kb DS 0.708113345897187
47
+ Internode (7.8) 1kb US - 5kb DS 0.708893025344515
Figures/Fig7_panela.txt ADDED
@@ -0,0 +1,13 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ Species BinLabel Ratio RatioLCI RatioUCI
2
+ A. thaliana <0.001 1.80417031573512 1.79421122117692 1.81321931733638
3
+ A. thaliana 0.001-
4
+ 0.01 1.4763317224907 1.46760341533666 1.48427906135701
5
+ A. thaliana 0.01-
6
+ 0.05 1.09434766849321 1.08411450726465 1.10372451878627
7
+ A. thaliana >0.05 0.74763122711155 0.741111647431835 0.753363306896884
8
+ O. sativa 0.001-
9
+ 0.01 1.46922601186522 1.45328782528876 1.48447763257969
10
+ O. sativa <0.001 1.60192007144452 1.55255380932752 1.67003041483845
11
+ O. sativa 0.01-
12
+ 0.05 1.32297667390688 1.30549882835489 1.34443622916762
13
+ O. sativa >0.05 1.22248373586318 1.21174568636103 1.23179399122349
Figures/Fig7_panelb.txt ADDED
@@ -0,0 +1,161 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ Species BinLabel Score Cutoff OR ORLCI ORUCI
2
+ A. thaliana 0.001-0.01 GPN 0.01 2.79589374972583 2.65402406918302 2.94648832053553
3
+ A. thaliana <0.001 GPN 0.01 3.92476063722532 3.73003020997533 4.13140987300125
4
+ O. sativa 0.001-0.01 GPN 0.01 1.78372157580633 1.73685975872899 1.8318793763113
5
+ O. sativa <0.001 GPN 0.01 3.11171004981781 2.94106822844044 3.29048630724921
6
+ A. thaliana 0.001-0.01 LLR 0.01 2.02398349853504 1.9377917334414 2.11453215792092
7
+ A. thaliana <0.001 LLR 0.01 2.18601166256716 2.09456678363459 2.28230181199414
8
+ O. sativa 0.001-0.01 LLR 0.01 2.16548807032713 2.1071480585774 2.22542085682122
9
+ O. sativa <0.001 LLR 0.01 8.2639173295073 7.91167022064462 8.62825790565756
10
+ A. thaliana 0.001-0.01 dot product (layer 11) 0.01 2.39245013686122 2.28765733266279 2.5025932512594
11
+ A. thaliana <0.001 dot product (layer 11) 0.01 2.05662206960722 1.96701339971264 2.15123790981399
12
+ O. sativa 0.001-0.01 dot product (layer 11) 0.01 1.80929616301833 1.76134591740048 1.85888615688131
13
+ O. sativa <0.001 dot product (layer 11) 0.01 10.9123215496555 10.4841389325897 11.3590983782801
14
+ A. thaliana 0.001-0.01 dot product (layer 21) 0.01 1.9866399760306 1.9051245842422 2.07208934992022
15
+ A. thaliana <0.001 dot product (layer 21) 0.01 1.71927938362758 1.64902467710638 1.79317196177141
16
+ O. sativa 0.001-0.01 dot product (layer 21) 0.01 3.33270424232566 3.237244254904 3.43129580579134
17
+ O. sativa <0.001 dot product (layer 21) 0.01 26.8675350565658 25.8449300106299 27.8827570590091
18
+ A. thaliana 0.001-0.01 dot product (layer 31) 0.01 2.25854597369053 2.16205087820968 2.35991705032605
19
+ A. thaliana <0.001 dot product (layer 31) 0.01 1.89739397050903 1.81649190389093 1.98262249946846
20
+ O. sativa 0.001-0.01 dot product (layer 31) 0.01 2.33684164561244 2.27318229095661 2.40231430379639
21
+ O. sativa <0.001 dot product (layer 31) 0.01 17.0698149322323 16.4267094445558 17.7307911102106
22
+ A. thaliana 0.001-0.01 dot product (layer 40) 0.01 1.80494686959544 1.73285787239587 1.88029800499497
23
+ A. thaliana <0.001 dot product (layer 40) 0.01 1.61202761589844 1.54809671871742 1.67922745193526
24
+ O. sativa 0.001-0.01 dot product (layer 40) 0.01 1.68633615196124 1.64110291876775 1.73301730246615
25
+ O. sativa <0.001 dot product (layer 40) 0.01 10.444299089724 10.0400574142299 10.8630741595171
26
+ A. thaliana 0.001-0.01 phyloP 0.01 2.20207202102618 2.10380149721509 2.30567529695017
27
+ A. thaliana <0.001 phyloP 0.01 2.88798892256567 2.76196939195001 3.02075853654835
28
+ O. sativa 0.001-0.01 phyloP 0.01 1.72702832638307 1.68231599074119 1.77303290817394
29
+ O. sativa <0.001 phyloP 0.01 0.840498307365427 0.761705530415916 0.925423940661311
30
+ A. thaliana 0.001-0.01 phastCons 0.01 1.89308656025406 1.81158220362467 1.97866756734878
31
+ A. thaliana <0.001 phastCons 0.01 2.43942621345622 2.33720482809442 2.5468632305519
32
+ O. sativa 0.001-0.01 phastCons 0.01 1.48288209164138 1.44488227970568 1.52198135857454
33
+ O. sativa <0.001 phastCons 0.01 0.468813407427246 0.413601445256946 0.52941794983114
34
+ A. thaliana 0.001-0.01 GPN 0.02 2.48596852803267 2.40170202953465 2.57412793675262
35
+ A. thaliana <0.001 GPN 0.02 3.2627913321495 3.15439890855922 3.37589682928079
36
+ O. sativa 0.001-0.01 GPN 0.02 1.5875395767333 1.5580151386903 1.61766713719248
37
+ O. sativa <0.001 GPN 0.02 2.46374425190682 2.36023095271571 2.57097841315927
38
+ A. thaliana 0.001-0.01 LLR 0.02 1.83214271189839 1.77836491386574 1.88764535979103
39
+ A. thaliana <0.001 LLR 0.02 1.98228633427978 1.92525662120697 2.04144490458804
40
+ O. sativa 0.001-0.01 LLR 0.02 2.05677217734568 2.01745843115565 2.0967133344759
41
+ O. sativa <0.001 LLR 0.02 6.93089846489104 6.70792989353286 7.15815844515565
42
+ A. thaliana 0.001-0.01 dot product (layer 11) 0.02 2.06029218905194 1.99970136839312 2.12288798120994
43
+ A. thaliana <0.001 dot product (layer 11) 0.02 1.74799221790295 1.69674592834804 1.80115171926689
44
+ O. sativa 0.001-0.01 dot product (layer 11) 0.02 1.75650404635071 1.72332235417785 1.79040921062824
45
+ O. sativa <0.001 dot product (layer 11) 0.02 9.95567894761612 9.66630634957815 10.2566647523147
46
+ A. thaliana 0.001-0.01 dot product (layer 21) 0.02 1.66772753801108 1.62198729895713 1.71479149522291
47
+ A. thaliana <0.001 dot product (layer 21) 0.02 1.43132137560334 1.39225805390371 1.47171556185624
48
+ O. sativa 0.001-0.01 dot product (layer 21) 0.02 2.58194466923083 2.53115419626317 2.63400826315577
49
+ O. sativa <0.001 dot product (layer 21) 0.02 20.3372291805836 19.7786950774532 20.9161269585403
50
+ A. thaliana 0.001-0.01 dot product (layer 31) 0.02 2.02067748152562 1.96156677930071 2.08177474910558
51
+ A. thaliana <0.001 dot product (layer 31) 0.02 1.69058921674105 1.64120874248772 1.7417567494896
52
+ O. sativa 0.001-0.01 dot product (layer 31) 0.02 2.2170527771336 2.17410007756911 2.26076038420915
53
+ O. sativa <0.001 dot product (layer 31) 0.02 15.9136510962947 15.4680775345836 16.3752779601244
54
+ A. thaliana 0.001-0.01 dot product (layer 40) 0.02 1.58208848846697 1.53936244041925 1.62627450497646
55
+ A. thaliana <0.001 dot product (layer 40) 0.02 1.40478831954751 1.36708630413452 1.44377781150719
56
+ O. sativa 0.001-0.01 dot product (layer 40) 0.02 1.64561226400604 1.61439113913757 1.6775716636048
57
+ O. sativa <0.001 dot product (layer 40) 0.02 9.26411600110014 8.99649325149299 9.53681409731375
58
+ A. thaliana 0.001-0.01 phyloP 0.02 2.28451626067308 2.21121292738807 2.36065164852852
59
+ A. thaliana <0.001 phyloP 0.02 2.99526221515086 2.90145006548384 3.09253188797344
60
+ O. sativa 0.001-0.01 phyloP 0.02 1.6668345334367 1.63994611966399 1.69438994520926
61
+ O. sativa <0.001 phyloP 0.02 0.836108399355207 0.787260247035125 0.887289328198364
62
+ A. thaliana 0.001-0.01 phastCons 0.02 1.66240335236207 1.61383923016009 1.71275373343627
63
+ A. thaliana <0.001 phastCons 0.02 2.11713636728554 2.05701236857512 2.17952271285749
64
+ O. sativa 0.001-0.01 phastCons 0.02 1.29302099700534 1.2693435437887 1.31723383291322
65
+ O. sativa <0.001 phastCons 0.02 0.439110007793609 0.402186299016245 0.478569803627006
66
+ A. thaliana 0.001-0.01 GPN 0.03 2.33434121175978 2.27134685221323 2.39920588272483
67
+ A. thaliana <0.001 GPN 0.03 2.91670361477971 2.83965420882223 2.99605687495373
68
+ O. sativa 0.001-0.01 GPN 0.03 1.4774203538699 1.45489745107115 1.50044433885433
69
+ O. sativa <0.001 GPN 0.03 2.11743742897935 2.04048688120762 2.19657676743216
70
+ A. thaliana 0.001-0.01 LLR 0.03 1.71519899482058 1.6748686273663 1.75650026365398
71
+ A. thaliana <0.001 LLR 0.03 1.83440438137437 1.79222909917478 1.8780615482461
72
+ O. sativa 0.001-0.01 LLR 0.03 1.97262905812463 1.94183051941307 2.00382938251295
73
+ O. sativa <0.001 LLR 0.03 6.16476994532928 5.99513927792258 6.33963184971565
74
+ A. thaliana 0.001-0.01 dot product (layer 11) 0.03 1.84074777960111 1.79797061736989 1.88456560511542
75
+ A. thaliana <0.001 dot product (layer 11) 0.03 1.56614264033364 1.52988699327701 1.60350318325963
76
+ O. sativa 0.001-0.01 dot product (layer 11) 0.03 1.71702344636813 1.69041914839738 1.74417696021837
77
+ O. sativa <0.001 dot product (layer 11) 0.03 9.65532740890558 9.4172637147712 9.89980237092704
78
+ A. thaliana 0.001-0.01 dot product (layer 21) 0.03 1.51350093486639 1.48058513001606 1.54738759896126
79
+ A. thaliana <0.001 dot product (layer 21) 0.03 1.31337085913953 1.28487387272825 1.34261309872009
80
+ O. sativa 0.001-0.01 dot product (layer 21) 0.03 2.32303980284168 2.2860555265821 2.36081094368585
81
+ O. sativa <0.001 dot product (layer 21) 0.03 17.7632678195676 17.3414325255972 18.1801760109056
82
+ A. thaliana 0.001-0.01 dot product (layer 31) 0.03 1.85124326373307 1.80816934593179 1.89549127441719
83
+ A. thaliana <0.001 dot product (layer 31) 0.03 1.55040981663768 1.51447529879647 1.5874187718904
84
+ O. sativa 0.001-0.01 dot product (layer 31) 0.03 2.12739104377944 2.09363895856261 2.161608259201
85
+ O. sativa <0.001 dot product (layer 31) 0.03 15.1689295147715 14.8163197162614 15.5432745511529
86
+ A. thaliana 0.001-0.01 dot product (layer 40) 0.03 1.47376172667361 1.44184029224461 1.50662582440822
87
+ A. thaliana <0.001 dot product (layer 40) 0.03 1.322352464244 1.29391030299951 1.35157332722699
88
+ O. sativa 0.001-0.01 dot product (layer 40) 0.03 1.58698174002996 1.56234493435694 1.61216997817258
89
+ O. sativa <0.001 dot product (layer 40) 0.03 8.35030732066262 8.14197798549785 8.56289797378876
90
+ A. thaliana 0.001-0.01 phyloP 0.03 2.18407422566129 2.1266486273253 2.24332957314268
91
+ A. thaliana <0.001 phyloP 0.03 2.83435717922493 2.76123046757969 2.90934799380533
92
+ O. sativa 0.001-0.01 phyloP 0.03 1.64183476756535 1.61692077037694 1.66732074370854
93
+ O. sativa <0.001 phyloP 0.03 0.807959936278909 0.763109529728135 0.854848844010782
94
+ A. thaliana 0.001-0.01 phastCons 0.03 1.58260988659647 1.54547666514553 1.62097987213968
95
+ A. thaliana <0.001 phastCons 0.03 1.98508645816788 1.93985441957779 2.03180247683594
96
+ O. sativa 0.001-0.01 phastCons 0.03 1.21750733649667 1.19908862125606 1.23623365064688
97
+ O. sativa <0.001 phastCons 0.03 0.448838802334234 0.418569113109332 0.480740067321972
98
+ A. thaliana 0.001-0.01 GPN 0.04 2.19130490941388 2.14160395923093 2.24242742790748
99
+ A. thaliana <0.001 GPN 0.04 2.65346582461006 2.59419959003218 2.71397940681267
100
+ O. sativa 0.001-0.01 GPN 0.04 1.40078499416436 1.38216238525556 1.4196225203297
101
+ O. sativa <0.001 GPN 0.04 1.89595067691544 1.83373011605294 1.95993711731558
102
+ A. thaliana 0.001-0.01 LLR 0.04 1.62348319757259 1.59095452955447 1.65667715044617
103
+ A. thaliana <0.001 LLR 0.04 1.72472348751822 1.69096273390546 1.75959295927223
104
+ O. sativa 0.001-0.01 LLR 0.04 1.91820392137009 1.89220635038762 1.94440936749118
105
+ O. sativa <0.001 LLR 0.04 5.6126018081428 5.47312028586688 5.75506648195356
106
+ A. thaliana 0.001-0.01 dot product (layer 11) 0.04 1.68929266713781 1.65618259218014 1.72317170759557
107
+ A. thaliana <0.001 dot product (layer 11) 0.04 1.44413693068704 1.41596095430339 1.47302008628704
108
+ O. sativa 0.001-0.01 dot product (layer 11) 0.04 1.69513445620973 1.67230582291661 1.71843982109143
109
+ O. sativa <0.001 dot product (layer 11) 0.04 9.37171459783246 9.16241491840208 9.58225258823019
110
+ A. thaliana 0.001-0.01 dot product (layer 21) 0.04 1.40465822138623 1.37864500611508 1.43132087962387
111
+ A. thaliana <0.001 dot product (layer 21) 0.04 1.23966875937099 1.21678481649364 1.26305667797411
112
+ O. sativa 0.001-0.01 dot product (layer 21) 0.04 2.14564327509633 2.11595213960973 2.17568555969694
113
+ O. sativa <0.001 dot product (layer 21) 0.04 15.7771632768255 15.4404182661035 16.1127607506724
114
+ A. thaliana 0.001-0.01 dot product (layer 31) 0.04 1.68970602202741 1.65656419397682 1.72354087728623
115
+ A. thaliana <0.001 dot product (layer 31) 0.04 1.4272524708277 1.39933055339902 1.45589976926807
116
+ O. sativa 0.001-0.01 dot product (layer 31) 0.04 2.02185205428639 1.99404889249427 2.05003831457693
117
+ O. sativa <0.001 dot product (layer 31) 0.04 14.103013152026 13.7959839841026 14.4206849906182
118
+ A. thaliana 0.001-0.01 dot product (layer 40) 0.04 1.41151419272004 1.38516766948566 1.43851926985581
119
+ A. thaliana <0.001 dot product (layer 40) 0.04 1.28141305180484 1.25770846196954 1.30569232959464
120
+ O. sativa 0.001-0.01 dot product (layer 40) 0.04 1.5323993499345 1.51170985308841 1.55341662474786
121
+ O. sativa <0.001 dot product (layer 40) 0.04 7.67235888730279 7.50054453816972 7.84789763530505
122
+ A. thaliana 0.001-0.01 phyloP 0.04 2.09559046072165 2.04926222705136 2.14297829851504
123
+ A. thaliana <0.001 phyloP 0.04 2.65597257771655 2.59856518505137 2.71455042918031
124
+ O. sativa 0.001-0.01 phyloP 0.04 1.61849694001289 1.59718709057015 1.64022211010842
125
+ O. sativa <0.001 phyloP 0.04 0.809640070836025 0.770858801812313 0.849977873871861
126
+ A. thaliana 0.001-0.01 phastCons 0.04 1.49959502534535 1.46956502742744 1.5304817231368
127
+ A. thaliana <0.001 phastCons 0.04 1.86191818466513 1.82575539405743 1.89922251270897
128
+ O. sativa 0.001-0.01 phastCons 0.04 1.18894579061163 1.17320992674221 1.20481962666039
129
+ O. sativa <0.001 phastCons 0.04 0.497687975591887 0.470022436905745 0.526638020784996
130
+ A. thaliana 0.001-0.01 GPN 0.05 2.0758876934699 2.03457552451978 2.11813644025119
131
+ A. thaliana <0.001 GPN 0.05 2.45378999630138 2.40559517585373 2.50258697747763
132
+ O. sativa 0.001-0.01 GPN 0.05 1.33965649735353 1.32365341301537 1.35588073728866
133
+ O. sativa <0.001 GPN 0.05 1.72239341553005 1.66984866708293 1.77628251646092
134
+ A. thaliana 0.001-0.01 LLR 0.05 1.55174951268505 1.52423519992644 1.57981114088671
135
+ A. thaliana <0.001 LLR 0.05 1.64353107458719 1.61503824135057 1.67274276227319
136
+ O. sativa 0.001-0.01 LLR 0.05 1.86505502746517 1.84237815026104 1.88792303369666
137
+ O. sativa <0.001 LLR 0.05 5.16830667123936 5.04829140247517 5.29009679827909
138
+ A. thaliana 0.001-0.01 dot product (layer 11) 0.05 1.59604179849022 1.56839087637682 1.6241855531187
139
+ A. thaliana <0.001 dot product (layer 11) 0.05 1.37077087323515 1.34715187242273 1.39490465199656
140
+ O. sativa 0.001-0.01 dot product (layer 11) 0.05 1.67019606864879 1.64996411535055 1.69084518716361
141
+ O. sativa <0.001 dot product (layer 11) 0.05 9.03968045100982 8.85533789602421 9.22595708585399
142
+ A. thaliana 0.001-0.01 dot product (layer 21) 0.05 1.32808928192591 1.30633225760426 1.35034795183316
143
+ A. thaliana <0.001 dot product (layer 21) 0.05 1.17799120384187 1.15879316900197 1.19754156139607
144
+ O. sativa 0.001-0.01 dot product (layer 21) 0.05 2.03055298953996 2.00541606594466 2.0558889696073
145
+ O. sativa <0.001 dot product (layer 21) 0.05 14.2222047152541 13.945790003853 14.5111520913723
146
+ A. thaliana 0.001-0.01 dot product (layer 31) 0.05 1.56221644656392 1.53532057297579 1.58959466695536
147
+ A. thaliana <0.001 dot product (layer 31) 0.05 1.33598717162887 1.31310663793255 1.35939988676715
148
+ O. sativa 0.001-0.01 dot product (layer 31) 0.05 1.94462136909251 1.92053155431956 1.96873495691104
149
+ O. sativa <0.001 dot product (layer 31) 0.05 13.1534116424103 12.901511252459 13.4294182875728
150
+ A. thaliana 0.001-0.01 dot product (layer 40) 0.05 1.36554172684486 1.3428894794818 1.38871284475542
151
+ A. thaliana <0.001 dot product (layer 40) 0.05 1.24458469330099 1.22417107575019 1.26547594818397
152
+ O. sativa 0.001-0.01 dot product (layer 40) 0.05 1.49661087599014 1.47849362689841 1.51507957530659
153
+ O. sativa <0.001 dot product (layer 40) 0.05 7.08364566252864 6.9341871461456 7.2323520729574
154
+ A. thaliana 0.001-0.01 phyloP 0.05 2.04273414727479 2.00348672865142 2.0828553304385
155
+ A. thaliana <0.001 phyloP 0.05 2.56940568337409 2.52144163014719 2.61888439523929
156
+ O. sativa 0.001-0.01 phyloP 0.05 1.5797117403782 1.56094039384276 1.59886017972503
157
+ O. sativa <0.001 phyloP 0.05 0.771601503997123 0.737689786190045 0.806734050365224
158
+ A. thaliana 0.001-0.01 phastCons 0.05 1.41808098454463 1.39312363326123 1.44363889892379
159
+ A. thaliana <0.001 phastCons 0.05 1.74023030274344 1.71042922540453 1.77075390134839
160
+ O. sativa 0.001-0.01 phastCons 0.05 1.17589476498483 1.16192048062619 1.19006515909256
161
+ O. sativa <0.001 phastCons 0.05 0.527300889034444 0.501721360293282 0.553823787798615
Figures/Fig7_panelc.txt ADDED
@@ -0,0 +1,81 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ Species Label Score Cutoff OR ORLCI ORUCI
2
+ A. thaliana coding GPN 0.01 1.15149325913358 0.878023512815937 1.48525284063787
3
+ A. thaliana non-coding GPN 0.01 1.6385209054985 1.33012851806986 1.99959201513652
4
+ A. thaliana coding phyloP 0.01 1.23375497298719 0.992924643573568 1.51709251810142
5
+ A. thaliana non-coding phyloP 0.01 1.19797829556504 0.943151741059582 1.5023232600968
6
+ A. thaliana coding phastCons 0.01 1.11346862618412 0.845152159956271 1.44193122840763
7
+ A. thaliana non-coding phastCons 0.01 1.10875981284169 0.865916260227574 1.40035275040863
8
+ A. thaliana coding LLR 0.01 0.938439724304913 0.69528968070105 1.24086863428277
9
+ A. thaliana non-coding LLR 0.01 1.7852347763965 1.46134959873797 2.16232755996585
10
+ A. thaliana coding dot product (layer 11) 0.01 1.3505523443766 1.04860887463022 1.71475973571805
11
+ A. thaliana non-coding dot product (layer 11) 0.01 2.88185751952188 2.43960361540078 3.3858252067243
12
+ A. thaliana coding dot product (layer 21) 0.01 1.49487099395042 1.1780229375524 1.87343554202231
13
+ A. thaliana non-coding dot product (layer 21) 0.01 1.37267107200458 1.08845447474317 1.71061081883935
14
+ A. thaliana coding dot product (layer 31) 0.01 1.01684763530313 0.762128518233314 1.33130365245969
15
+ A. thaliana non-coding dot product (layer 31) 0.01 2.28373175231466 1.90289468547401 2.72217762671585
16
+ A. thaliana coding dot product (layer 40) 0.01 1.44607347278545 1.1343017341034 1.81971300792749
17
+ A. thaliana non-coding dot product (layer 40) 0.01 2.8240591129705 2.39284501729866 3.3149035910378
18
+ A. thaliana coding GPN 0.02 1.21863294420981 1.01369607088174 1.45416311111647
19
+ A. thaliana non-coding GPN 0.02 1.59720416243324 1.37712422876677 1.84395066320483
20
+ A. thaliana coding phyloP 0.02 1.2635062963944 1.0538902590977 1.50400368449058
21
+ A. thaliana non-coding phyloP 0.02 1.21372106899637 1.02777237017571 1.42476647190925
22
+ A. thaliana coding phastCons 0.02 1.22850298310606 1.02261532261873 1.46499003926591
23
+ A. thaliana non-coding phastCons 0.02 1.17091896394563 0.989489356133552 1.3771033098622
24
+ A. thaliana coding LLR 0.02 1.04251738140831 0.85509572650409 1.25985200644557
25
+ A. thaliana non-coding LLR 0.02 1.70212466728269 1.47392820268947 1.95722353865806
26
+ A. thaliana coding dot product (layer 11) 0.02 1.64831352642149 1.40284897895137 1.9261177841857
27
+ A. thaliana non-coding dot product (layer 11) 0.02 2.78813280566878 2.47341838540928 3.13469019506542
28
+ A. thaliana coding dot product (layer 21) 0.02 1.15764816647232 0.958833880485238 1.38685016652752
29
+ A. thaliana non-coding dot product (layer 21) 0.02 2.00409805971712 1.74787672789581 2.28914763297693
30
+ A. thaliana coding dot product (layer 31) 0.02 1.05490009311297 0.866027092636251 1.27389315783325
31
+ A. thaliana non-coding dot product (layer 31) 0.02 2.16858987919223 1.90087664564012 2.46552472617563
32
+ A. thaliana coding dot product (layer 40) 0.02 1.29064133237207 1.0786249104618 1.53356177192815
33
+ A. thaliana non-coding dot product (layer 40) 0.02 2.46328543265941 2.17534329302053 2.78135213868627
34
+ A. thaliana coding GPN 0.03 1.20282721985064 1.03426646674918 1.39208313884168
35
+ A. thaliana non-coding GPN 0.03 1.48478186529501 1.30993585389488 1.67753026648217
36
+ A. thaliana coding phyloP 0.03 1.24073327146706 1.06878554790175 1.43351097476107
37
+ A. thaliana non-coding phyloP 0.03 1.21901039782217 1.06524648281977 1.38964488631166
38
+ A. thaliana coding phastCons 0.03 1.22229866346993 1.05214718664718 1.41314866229905
39
+ A. thaliana non-coding phastCons 0.03 1.08807283305442 0.943996132749947 1.24876305891899
40
+ A. thaliana coding LLR 0.03 1.08380955478613 0.925130103269385 1.26286607688666
41
+ A. thaliana non-coding LLR 0.03 1.60290654043459 1.42029078245583 1.80368905524625
42
+ A. thaliana coding dot product (layer 11) 0.03 1.58866051995537 1.3893698686209 1.80987474248079
43
+ A. thaliana non-coding dot product (layer 11) 0.03 2.58364001941363 2.33373912829111 2.8546752824397
44
+ A. thaliana coding dot product (layer 21) 0.03 0.996133183461066 0.844720739907566 1.16773908243927
45
+ A. thaliana non-coding dot product (layer 21) 0.03 2.06582308421483 1.84940310436603 2.30219444264047
46
+ A. thaliana coding dot product (layer 31) 0.03 1.04237819254903 0.886910602335221 1.21809063213958
47
+ A. thaliana non-coding dot product (layer 31) 0.03 2.11267804993853 1.8938651612622 2.35146388895535
48
+ A. thaliana coding dot product (layer 40) 0.03 1.23930809668863 1.06756264031319 1.43182573656651
49
+ A. thaliana non-coding dot product (layer 40) 0.03 2.35652015082284 2.12354592052939 2.6097999717561
50
+ A. thaliana coding GPN 0.04 1.18038682595108 1.03432564539768 1.3421696499752
51
+ A. thaliana non-coding GPN 0.04 1.48632945019287 1.33306314561803 1.65341906655882
52
+ A. thaliana coding phyloP 0.04 1.18157887749402 1.03506374464616 1.34386708009336
53
+ A. thaliana non-coding phyloP 0.04 1.2020562574825 1.06800687619484 1.34903810311453
54
+ A. thaliana coding phastCons 0.04 1.18543281608856 1.03898158676034 1.34754190769936
55
+ A. thaliana non-coding phastCons 0.04 1.08949071109693 0.963334600951261 1.22833487552266
56
+ A. thaliana coding LLR 0.04 1.10438734809818 0.963966489676656 1.26032756215295
57
+ A. thaliana non-coding LLR 0.04 1.49215345935172 1.3386820524722 1.65946746170896
58
+ A. thaliana coding dot product (layer 11) 0.04 1.52884601775814 1.35794680998799 1.71645355289076
59
+ A. thaliana non-coding dot product (layer 11) 0.04 2.50076655040727 2.28538865066211 2.73263339860938
60
+ A. thaliana coding dot product (layer 21) 0.04 1.02927877318171 0.894300469142291 1.17967633185661
61
+ A. thaliana non-coding dot product (layer 21) 0.04 2.1013878287509 1.90945063363795 2.30881165973883
62
+ A. thaliana coding dot product (layer 31) 0.04 1.05026689969085 0.913578020723768 1.20233207351624
63
+ A. thaliana non-coding dot product (layer 31) 0.04 2.05429535288686 1.86536569971145 2.25853318983591
64
+ A. thaliana coding dot product (layer 40) 0.04 1.25213032338587 1.10082764733946 1.41932968876037
65
+ A. thaliana non-coding dot product (layer 40) 0.04 2.18004895628444 1.98488755101312 2.39076095502702
66
+ A. thaliana coding GPN 0.05 1.19774726995602 1.06475478199342 1.3435051587008
67
+ A. thaliana non-coding GPN 0.05 1.44779988470034 1.31144357804664 1.59527389213163
68
+ A. thaliana coding phyloP 0.05 1.18230976391146 1.05048714168907 1.32688410199608
69
+ A. thaliana non-coding phyloP 0.05 1.15722841011739 1.03885310118241 1.28604376057543
70
+ A. thaliana coding phastCons 0.05 1.15196773527778 1.0218984039543 1.2947674960409
71
+ A. thaliana non-coding phastCons 0.05 1.00680796170396 0.897939057008922 1.12579652847575
72
+ A. thaliana coding LLR 0.05 1.09779957717192 0.971497677119463 1.23669946360079
73
+ A. thaliana non-coding LLR 0.05 1.41285418645614 1.27849002573493 1.55829469738091
74
+ A. thaliana coding dot product (layer 11) 0.05 1.4654382367406 1.31477362943656 1.62976454971543
75
+ A. thaliana non-coding dot product (layer 11) 0.05 2.33032243138904 2.14326813820111 2.53034555672067
76
+ A. thaliana coding dot product (layer 21) 0.05 1.06832362573167 0.943865578075569 1.20528000265378
77
+ A. thaliana non-coding dot product (layer 21) 0.05 2.11201860480956 1.93764146934321 2.29895005055324
78
+ A. thaliana coding dot product (layer 31) 0.05 1.07035321979091 0.945650178709713 1.20753642170338
79
+ A. thaliana non-coding dot product (layer 31) 0.05 2.01564146130028 1.84658881909769 2.19716444692717
80
+ A. thaliana coding dot product (layer 40) 0.05 1.20591550009589 1.07218738488266 1.3525178012126
81
+ A. thaliana non-coding dot product (layer 40) 0.05 2.07839222724193 1.90667420193793 2.26269204593029
Figures/Fig7_paneld.txt ADDED
@@ -0,0 +1,55 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ Model1 Model2 r Layer
2
+ GPN GPN NA Loss-based
3
+ phyloP GPN -0.20430223352512 Loss-based
4
+ phastCons GPN -0.0988748514289571 Loss-based
5
+ GPN LLR 0.594225893848547 Loss-based
6
+ phyloP LLR -0.133516632221117 Loss-based
7
+ phastCons LLR -0.0358971601734904 Loss-based
8
+ GPN cos similarity 0.0573209639597964 11
9
+ phyloP cos similarity 0.00233138491226243 11
10
+ phastCons cos similarity 0.0248488140472222 11
11
+ GPN dot product -0.0935924070591606 11
12
+ phyloP dot product -0.115887001390502 11
13
+ phastCons dot product -0.177584590910111 11
14
+ GPN l1 distance -0.0778989339721649 11
15
+ phyloP l1 distance 0.00685386455309636 11
16
+ phastCons l1 distance -0.0310017670716644 11
17
+ GPN l2 distance -0.0830159041999567 11
18
+ phyloP l2 distance 0.00422985416066335 11
19
+ phastCons l2 distance -0.0366067676484995 11
20
+ GPN cos similarity 0.0656942093351704 21
21
+ phyloP cos similarity 0.00678946387997435 21
22
+ phastCons cos similarity 0.0291039251133519 21
23
+ GPN dot product -0.133552573268592 21
24
+ phyloP dot product -0.0998713277683583 21
25
+ phastCons dot product -0.135953571130837 21
26
+ GPN l1 distance -0.102875558990518 21
27
+ phyloP l1 distance -0.00893751608057503 21
28
+ phastCons l1 distance -0.0481006669057204 21
29
+ GPN l2 distance -0.103498931570725 21
30
+ phyloP l2 distance -0.00921390539952009 21
31
+ phastCons l2 distance -0.0501028937746948 21
32
+ GPN cos similarity 0.0358596116768626 31
33
+ phyloP cos similarity -0.00228886948737331 31
34
+ phastCons cos similarity 0.0102150000652027 31
35
+ GPN dot product -0.123673103793413 31
36
+ phyloP dot product -0.0771467998085015 31
37
+ phastCons dot product -0.101970126555535 31
38
+ GPN l1 distance -0.0908150470593039 31
39
+ phyloP l1 distance 0.000297805618807892 31
40
+ phastCons l1 distance -0.0259016534709807 31
41
+ GPN l2 distance -0.0740172196305742 31
42
+ phyloP l2 distance 0.00229576468778455 31
43
+ phastCons l2 distance -0.0225394945339547 31
44
+ GPN cos similarity 0.0491586785072186 40
45
+ phyloP cos similarity 0.00222711329754801 40
46
+ phastCons cos similarity 0.0238743510053775 40
47
+ GPN dot product -0.0261837904102534 40
48
+ phyloP dot product -0.0693059004207869 40
49
+ phastCons dot product -0.127992271052942 40
50
+ GPN l1 distance -0.0788263269630498 40
51
+ phyloP l1 distance 0.00246841658677939 40
52
+ phastCons l1 distance -0.0304553887788611 40
53
+ GPN l2 distance -0.0802090769456271 40
54
+ phyloP l2 distance 0.00189805646307345 40
55
+ phastCons l2 distance -0.0318934924590018 40
Figures/Fig8_panela.txt ADDED
@@ -0,0 +1,770 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ FPR TPR cutoff Species
2
+ 0 0 0.9993863 M. esculenta
3
+ 0 0.00253164556962025 0.9987588 M. esculenta
4
+ 0 0.00506329113924051 0.9969193 M. esculenta
5
+ 0 0.00759493670886076 0.99685484 M. esculenta
6
+ 0 0.010126582278481 0.99524176 M. esculenta
7
+ 0 0.0126582278481013 0.9951438 M. esculenta
8
+ 0 0.0151898734177215 0.99500954 M. esculenta
9
+ 0 0.0177215189873418 0.99432296 M. esculenta
10
+ 0 0.020253164556962 0.99403894 M. esculenta
11
+ 0 0.0227848101265823 0.9939257 M. esculenta
12
+ 0 0.0253164556962025 0.99155027 M. esculenta
13
+ 0 0.0278481012658228 0.99152064 M. esculenta
14
+ 0 0.030379746835443 0.9899673 M. esculenta
15
+ 0 0.0329113924050633 0.98917305 M. esculenta
16
+ 0 0.0354430379746835 0.98862815 M. esculenta
17
+ 0 0.0379746835443038 0.98820513 M. esculenta
18
+ 0 0.0405063291139241 0.987435 M. esculenta
19
+ 0 0.0430379746835443 0.9874179 M. esculenta
20
+ 0 0.0455696202531646 0.98722214 M. esculenta
21
+ 0 0.0481012658227848 0.98653 M. esculenta
22
+ 0 0.0506329113924051 0.98624355 M. esculenta
23
+ 0 0.0531645569620253 0.9861407 M. esculenta
24
+ 0 0.0556962025316456 0.985868 M. esculenta
25
+ 0 0.0582278481012658 0.9849381 M. esculenta
26
+ 0 0.0607594936708861 0.98467475 M. esculenta
27
+ 0 0.0632911392405063 0.98426706 M. esculenta
28
+ 0 0.0658227848101266 0.98390055 M. esculenta
29
+ 0 0.0683544303797468 0.98286813 M. esculenta
30
+ 0 0.0708860759493671 0.9822648 M. esculenta
31
+ 0 0.0734177215189873 0.9819119 M. esculenta
32
+ 0 0.0759493670886076 0.981721 M. esculenta
33
+ 0 0.0784810126582278 0.9813573 M. esculenta
34
+ 0 0.0810126582278481 0.97986245 M. esculenta
35
+ 0 0.0835443037974684 0.9795567 M. esculenta
36
+ 0.00268096514745308 0.0835443037974684 0.9790615 M. esculenta
37
+ 0.00268096514745308 0.0860759493670886 0.9789475 M. esculenta
38
+ 0.00268096514745308 0.0886075949367089 0.9787072 M. esculenta
39
+ 0.00268096514745308 0.0911392405063291 0.97859114 M. esculenta
40
+ 0.00268096514745308 0.0936708860759494 0.9781865 M. esculenta
41
+ 0.00268096514745308 0.0962025316455696 0.9779579 M. esculenta
42
+ 0.00536193029490617 0.0962025316455696 0.9770656 M. esculenta
43
+ 0.00536193029490617 0.0987341772151899 0.97597325 M. esculenta
44
+ 0.00536193029490617 0.10126582278481 0.9751472 M. esculenta
45
+ 0.00536193029490617 0.10379746835443 0.9750424 M. esculenta
46
+ 0.00536193029490617 0.106329113924051 0.9750097 M. esculenta
47
+ 0.00536193029490617 0.108860759493671 0.974787 M. esculenta
48
+ 0.00536193029490617 0.111392405063291 0.97434837 M. esculenta
49
+ 0.00536193029490617 0.113924050632911 0.9743128 M. esculenta
50
+ 0.00536193029490617 0.116455696202532 0.97326875 M. esculenta
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Figures/Fig8_panele.txt ADDED
The diff for this file is too large to render. See raw diff
 
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Git LFS Details

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Git LFS Details

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Git LFS Details

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Git LFS Details

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Git LFS Details

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Git LFS Details

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