Generate KRAB-ZNFs and TEs regulatory network
kznfsTEsNetwork.RdUse CoDiNA to generate gene regulatory network to combine KRAB-ZNFs and TEs network between two species.
Examples
data(hmCorrResult)
data(chimpCorrResult)
kznfsTEsNetwork(hmCorrResult, chimpCorrResult, code=c("net1", "net2"))
#> Starting now.
#> net1 contains 1497 edges and 747 nodes.
#> net2 contains 2886 edges and 925 nodes.
#> Total of nodes: 697
#> Total of edges: 4251
#> Coding correlations.
#> Total of edges (inside the cutoff): 2216
#> Starting Phi categorization.
#> Coding the groups.
#> Recode is done!
#> $DiffNet
#> Nodes 670
#> Links 2216
#>
#> $Graph
#> $Nodes
#> id Phi_tilde Phi Degree_Total Degree_a Degree_b Degree_g
#> 1 (GAATG)n U U 3 0 0 3
#> 2 AluJb U U 2 0 0 2
#> 3 AluJo U U 2 0 0 2
#> 4 AluJr U U 1 0 0 1
#> 5 AluJr4 U U 2 0 0 2
#> 6 AluSc U U 3 0 0 3
#> 7 AluSc8 U U 1 0 0 1
#> 8 AluSg4 U U 2 0 0 2
#> 9 AluSg7 U U 2 0 0 2
#> 10 AluSp U U 1 0 0 1
#> 11 AluSq10 U U 2 0 0 2
#> 12 AluSx U U 1 0 0 1
#> 13 AluSx3 U U 2 0 0 2
#> 14 AluSz U U 2 0 0 2
#> 15 AluSz6 U U 1 0 0 1
#> 16 AluY U U 4 0 0 4
#> 17 AluYa5 U U 1 0 0 1
#> 18 AluYa8 U g 9 1 0 8
#> 19 AluYk4 U U 1 0 0 1
#> 20 Arthur1A U U 2 0 0 2
#> 21 Arthur1B U U 2 0 0 2
#> 22 CR1_Mam U U 1 0 0 1
#> 23 Charlie1 U U 2 0 0 2
#> 24 Charlie13a U U 1 1 0 0
#> 25 Charlie13b U U 2 0 0 2
#> 26 Charlie14a U U 1 0 0 1
#> 27 Charlie15a U U 1 0 0 1
#> 28 Charlie16a U U 3 0 0 3
#> 29 Charlie18a U U 2 0 0 2
#> 30 Charlie19a U U 4 1 0 3
#> 31 Charlie1a U U 1 0 0 1
#> 32 Charlie1b U U 3 0 0 3
#> 33 Charlie23a U U 4 1 0 3
#> 34 Charlie24 U U 2 0 0 2
#> 35 Charlie2b U U 2 0 0 2
#> 36 Charlie3 U U 2 0 0 2
#> 37 Charlie4 U U 3 0 0 3
#> 38 Charlie4a U U 1 0 0 1
#> 39 Charlie4z U U 3 0 0 3
#> 40 Charlie6 U U 1 0 0 1
#> 41 Charlie9 U U 1 0 0 1
#> 42 D20S16 U U 2 0 0 2
#> 43 ERV3-16A3_I-int U U 1 0 0 1
#> 44 ERVL-int U U 1 0 0 1
#> 45 Eulor2B U U 3 0 0 3
#> 46 Eulor5A U U 1 0 0 1
#> 47 Eulor6D U U 3 0 0 3
#> 48 Eulor9C U U 2 0 0 2
#> 49 FRAM U U 4 0 0 4
#> 50 FordPrefect U U 2 0 0 2
#> 51 FordPrefect_a U U 3 0 0 3
#> 52 GSATII U U 4 1 0 3
#> 53 GSATX U U 1 0 0 1
#> 54 HAL1b U U 1 0 0 1
#> 55 HERV15-int U U 1 0 0 1
#> 56 HERV16-int U U 1 0 0 1
#> 57 HERV17-int U U 2 0 0 2
#> 58 HERV1_LTRa U U 1 0 0 1
#> 59 HERV1_LTRe g.net1 g 7 0 0 7
#> 60 HERV35I-int U U 2 0 0 2
#> 61 HERV4_I-int U U 3 0 0 3
#> 62 HERVE_a-int U U 1 1 0 0
#> 63 HERVH48-int U U 1 0 0 1
#> 64 HERVI-int U U 3 0 0 3
#> 65 HERVIP10F-int U U 2 1 0 1
#> 66 HERVK-int U U 2 1 0 1
#> 67 HERVK11-int U U 1 0 0 1
#> 68 HERVK11D-int U U 1 0 0 1
#> 69 HERVK13-int U U 1 0 0 1
#> 70 HERVK14-int U U 2 0 0 2
#> 71 HERVK14C-int U U 1 0 0 1
#> 72 HERVK3-int U U 1 0 0 1
#> 73 HERVK9-int U U 2 0 0 2
#> 74 HERVKC4-int U U 2 0 0 2
#> 75 HERVL18-int U U 5 0 0 5
#> 76 HERVL40-int U U 3 0 0 3
#> 77 HERVL66-int U U 2 0 0 2
#> 78 HERVP71A-int U U 2 0 0 2
#> 79 HSAT5 U U 2 0 0 2
#> 80 HUERS-P1-int U U 2 1 0 1
#> 81 HUERS-P2-int U U 3 0 0 3
#> 82 HUERS-P3-int U U 3 0 0 3
#> 83 Harlequin-int U U 2 0 0 2
#> 84 Helitron1Na_Mam U g 10 0 0 10
#> 85 Helitron1Nb_Mam U U 1 0 0 1
#> 86 Helitron2Na_Mam U U 2 0 0 2
#> 87 Kanga11a U U 2 0 0 2
#> 88 Kanga1b U U 3 0 0 3
#> 89 Kanga1d U U 3 0 0 3
#> 90 Kanga2_a U U 2 0 0 2
#> 91 L1HS U U 2 0 0 2
#> 92 L1M U U 4 0 0 4
#> 93 L1M1 U U 1 0 0 1
#> 94 L1M2 U U 3 0 0 3
#> 95 L1M3a U U 2 0 0 2
#> 96 L1M3de U U 4 0 0 4
#> 97 L1M4b U U 2 0 0 2
#> 98 L1M5 U U 3 0 0 3
#> 99 L1M6 U U 5 0 0 5
#> 100 L1MA2 U U 2 0 0 2
#> 101 L1MA3 U U 1 0 0 1
#> 102 L1MA4 U U 1 0 0 1
#> 103 L1MA4A U U 3 0 0 3
#> 104 L1MA5A U U 3 0 0 3
#> 105 L1MA6 U U 1 0 0 1
#> 106 L1MA7 U U 3 0 0 3
#> 107 L1MA8 U U 3 0 0 3
#> 108 L1MA9 U U 2 0 0 2
#> 109 L1MB1 U U 4 0 0 4
#> 110 L1MB2 U U 4 0 0 4
#> 111 L1MB3 U U 3 0 0 3
#> 112 L1MB5 U U 4 0 0 4
#> 113 L1MB7 U U 2 0 0 2
#> 114 L1MB8 U U 3 0 0 3
#> 115 L1MC U U 1 0 0 1
#> 116 L1MC1 U U 2 0 0 2
#> 117 L1MC2 U U 5 0 0 5
#> 118 L1MC3 U U 1 0 0 1
#> 119 L1MC4a U U 3 1 0 2
#> 120 L1MC5 U U 2 0 0 2
#> 121 L1MCa U U 4 1 0 3
#> 122 L1MCb U U 2 0 0 2
#> 123 L1MCc U U 6 0 0 6
#> 124 L1MD U U 1 0 0 1
#> 125 L1MD1 U U 4 0 0 4
#> 126 L1MD2 U U 5 0 0 5
#> 127 L1MD3 U U 3 0 0 3
#> 128 L1MDa U U 1 0 0 1
#> 129 L1MDb U U 2 0 0 2
#> 130 L1ME1 U U 4 0 0 4
#> 131 L1ME2 U U 2 0 0 2
#> 132 L1ME2z U U 3 0 0 3
#> 133 L1ME3 U U 4 0 0 4
#> 134 L1ME3A U U 3 0 0 3
#> 135 L1ME3B U U 1 0 0 1
#> 136 L1ME4a U U 2 0 0 2
#> 137 L1MEa U U 3 0 0 3
#> 138 L1MEb U U 2 0 0 2
#> 139 L1MEc U U 3 1 0 2
#> 140 L1MEd U U 1 0 0 1
#> 141 L1MEg U U 3 0 0 3
#> 142 L1MEg1 U U 1 0 0 1
#> [ reached 'max' / getOption("max.print") -- omitted 454 rows ]
#>
#> $Edges
#> id1 id2 Group Phi Score
#> 1 (GAATG)n ZNF211 g.net2 g 0.4807526
#> 2 (GAATG)n ZNF267 g.net2 g 0.4807526
#> 3 (GAATG)n ZNF746 g.net2 g 0.7199468
#> 4 AluJb ZNF282 g.net2 g 0.4159076
#> 5 AluJb ZNF431 g.net2 g 0.4159076
#> 6 AluJo TRIM28 g.net2 g 0.4372512
#> 7 AluJo ZNF140 g.net2 g 0.6405918
#> 8 AluJr ZSCAN12 g.net2 g 0.6640190
#> 9 AluJr4 ZNF282 g.net2 g 0.4580702
#> 10 AluJr4 ZNF431 g.net2 g 0.4580702
#> 11 AluSc TRIM28 g.net2 g 0.6373396
#> 12 AluSc ZNF140 g.net2 g 0.8406803
#> 13 AluSc ZNF430 g.net2 g 0.8563710
#> 14 AluSc8 ZSCAN12 g.net2 g 0.5797336
#> 15 AluSg4 ZNF282 g.net2 g 0.7055146
#> 16 AluSg4 ZNF431 g.net2 g 0.7055146
#> 17 AluSg7 ZNF24 g.net1 g 0.9209375
#> 18 AluSg7 ZSCAN12 g.net2 g 0.6386799
#> 19 AluSp ZNF140 g.net2 g 0.5147885
#> 20 AluSq10 ZNF282 g.net2 g 0.9258860
#> 21 AluSq10 ZNF431 g.net2 g 0.9258860
#> 22 AluSx ZNF140 g.net2 g 0.4727634
#> 23 AluSx3 ZNF211 g.net1 g 0.6891907
#> 24 AluSx3 ZNF746 g.net1 g 0.6891907
#> 25 AluSz ZNF430 g.net2 g 0.4592382
#> 26 AluSz ZNF496 g.net2 g 0.6490827
#> 27 AluSz6 ZNF561 g.net2 g 0.4231224
#> 28 AluY ZNF211 g.net1 g 0.8435078
#> 29 AluY ZNF561 g.net2 g 0.7798594
#> 30 AluY ZNF746 g.net1 g 0.8435078
#> 31 AluY ZSCAN12 g.net2 g 0.9063754
#> 32 AluYa5 ZNF24 g.net1 g 0.8852090
#> 33 AluYa8 TRIM28 g.net2 g 0.8030491
#> 34 AluYa8 ZFP69 g.net1 g 0.7717825
#> 35 AluYa8 ZNF184 g.net1 g 0.7250676
#> 36 AluYa8 ZNF195 g.net1 g 0.9361746
#> 37 AluYa8 ZNF430 g.net2 g 0.6906615
#> 38 AluYa8 ZNF45 g.net1 g 0.7250676
#> 39 AluYa8 ZNF496 a a 0.6205197
#> 40 AluYa8 ZNF561 g.net1 g 0.9786700
#> 41 AluYa8 ZSCAN9 g.net1 g 0.4747691
#> 42 AluYk4 ZNF354A g.net1 g 0.7079287
#> 43 Arthur1A ZNF496 g.net2 g 0.8800048
#> 44 Arthur1A ZSCAN12 g.net2 g 0.4283167
#> 45 Arthur1B ZNF496 g.net2 g 0.8750232
#> 46 Arthur1B ZSCAN12 g.net2 g 0.4233352
#> 47 CR1_Mam ZNF267 g.net1 g 0.9350020
#> 48 Charlie1 ZNF211 g.net1 g 0.8183441
#> 49 Charlie1 ZNF746 g.net1 g 0.8183441
#> 50 Charlie13a ZNF140 a a 0.4882979
#> 51 Charlie13b ZNF282 g.net2 g 0.9247772
#> 52 Charlie13b ZNF431 g.net2 g 0.9247772
#> 53 Charlie14a ZNF561 g.net2 g 0.5924441
#> 54 Charlie15a ZNF430 g.net2 g 0.5560042
#> 55 Charlie16a TRIM28 g.net2 g 0.9344562
#> 56 Charlie16a ZNF140 g.net2 g 0.7311156
#> 57 Charlie16a ZNF24 g.net1 g 0.9409525
#> 58 Charlie18a ZNF561 g.net2 g 0.7779676
#> 59 Charlie18a ZSCAN12 g.net2 g 0.9082672
#> 60 Charlie19a TRIM28 a a 0.4671902
#> 61 Charlie19a ZNF211 g.net2 g 0.6138645
#> 62 Charlie19a ZNF267 g.net2 g 0.6138645
#> 63 Charlie19a ZNF496 g.net2 g 0.9199263
#> 64 Charlie1a ZNF496 g.net2 g 0.8160061
#> 65 Charlie1b TRIM28 g.net2 g 0.5262928
#> 66 Charlie1b ZNF267 g.net2 g 0.6221083
#> 67 Charlie1b ZNF496 g.net2 g 0.9116825
#> 68 Charlie23a ZNF211 a a 0.8772301
#> 69 Charlie23a ZNF267 g.net2 g 0.8558476
#> 70 Charlie23a ZNF496 g.net2 g 0.6779432
#> 71 Charlie23a ZNF746 g.net1 g 0.8373734
#> 72 Charlie24 ZNF354A g.net1 g 0.8906228
#> 73 Charlie24 ZNF561 g.net2 g 0.7681794
#> 74 Charlie2b ZNF140 g.net1 g 0.5572364
#> 75 Charlie2b ZSCAN12 g.net2 g 0.4801528
#> 76 Charlie3 ZNF496 g.net2 g 0.9835704
#> 77 Charlie3 ZSCAN12 g.net2 g 0.5318824
#> 78 Charlie4 ZNF211 g.net2 g 0.9495756
#> 79 Charlie4 ZNF267 g.net2 g 0.9495756
#> 80 Charlie4 ZNF496 g.net2 g 0.5842152
#> 81 Charlie4a ZNF317 g.net1 g 0.8810089
#> 82 Charlie4z TRIM28 g.net2 g 0.4269501
#> 83 Charlie4z ZNF140 g.net2 g 0.6302908
#> 84 Charlie4z ZNF24 g.net1 g 0.6327733
#> 85 Charlie6 ZKSCAN8 g.net2 g 0.9370692
#> 86 Charlie9 ZSCAN12 g.net2 g 0.4486063
#> 87 D20S16 ZKSCAN8 g.net2 g 0.4298137
#> 88 D20S16 ZNF561 g.net2 g 0.7145109
#> 89 ERV3-16A3_I-int ZNF282 g.net1 g 0.6673783
#> 90 ERVL-int ZNF430 g.net2 g 0.9782111
#> 91 Eulor2B ZNF211 g.net2 g 0.7256714
#> 92 Eulor2B ZNF267 g.net2 g 0.7612829
#> 93 Eulor2B ZNF746 g.net2 g 0.4750280
#> 94 Eulor5A ZNF175 g.net1 g 0.4955006
#> 95 Eulor6D ZNF175 g.net2 g 0.9370692
#> 96 Eulor6D ZNF565 g.net2 g 0.9370692
#> 97 Eulor6D ZNF786 g.net2 g 0.9370692
#> 98 Eulor9C TRIM28 g.net2 g 0.8759693
#> 99 Eulor9C ZNF140 g.net2 g 0.6726287
#> 100 FRAM TRIM28 g.net2 g 0.7509365
#> 101 FRAM ZNF140 g.net2 g 0.9542771
#> 102 FRAM ZNF24 g.net1 g 0.7633592
#> 103 FRAM ZNF430 g.net2 g 0.7427741
#> 104 FordPrefect ZNF200 g.net1 g 0.5040438
#> 105 FordPrefect ZNF561 g.net2 g 0.7077763
#> 106 FordPrefect_a TRIM28 g.net2 g 0.8577386
#> 107 FordPrefect_a ZNF140 g.net2 g 0.6543979
#> 108 FordPrefect_a ZNF317 g.net1 g 0.9361746
#> 109 GSATII ZNF248 g.net1 g 0.7479862
#> 110 GSATII ZNF430 g.net1 g 0.6159096
#> 111 GSATII ZNF561 g.net2 g 0.9234244
#> 112 GSATII ZSCAN12 a a 0.9148512
#> 113 GSATX ZNF140 g.net2 g 0.5463015
#> 114 HAL1b ZSCAN12 g.net2 g 0.7767690
#> 115 HERV15-int ZSCAN12 g.net2 g 0.6883548
#> 116 HERV16-int ZKSCAN8 g.net2 g 0.8676392
#> 117 HERV17-int ZNF24 g.net1 g 0.7710590
#> 118 HERV17-int ZSCAN12 g.net2 g 0.6220129
#> 119 HERV1_LTRa ZNF317 g.net1 g 0.9361746
#> 120 HERV1_LTRe ZFP69 g.net1 g 0.7717825
#> 121 HERV1_LTRe ZNF184 g.net1 g 0.7250676
#> 122 HERV1_LTRe ZNF195 g.net1 g 0.9361746
#> 123 HERV1_LTRe ZNF45 g.net1 g 0.7250676
#> 124 HERV1_LTRe ZNF496 g.net1 g 0.8222174
#> 125 HERV1_LTRe ZNF561 g.net1 g 0.9786700
#> 126 HERV1_LTRe ZSCAN9 g.net1 g 0.4747691
#> 127 HERV35I-int ZNF200 g.net1 g 0.5040438
#> 128 HERV35I-int ZSCAN12 g.net2 g 0.5134862
#> 129 HERV4_I-int ZNF317 g.net1 g 0.4106062
#> 130 HERV4_I-int ZNF334 g.net1 g 0.7892306
#> 131 HERV4_I-int ZSCAN12 g.net2 g 0.6105385
#> 132 HERVE_a-int ZKSCAN8 a a 0.9562123
#> 133 HERVH48-int ZKSCAN8 g.net2 g 0.7428717
#> 134 HERVI-int TRIM28 g.net2 g 0.4660166
#> 135 HERVI-int ZNF140 g.net2 g 0.7120036
#> 136 HERVI-int ZNF24 g.net1 g 0.9091795
#> 137 HERVIP10F-int ZNF211 g.net1 g 0.7461927
#> 138 HERVIP10F-int ZNF746 a a 0.8752200
#> 139 HERVK-int TRIM28 g.net2 g 0.4326052
#> 140 HERVK-int ZNF140 a a 0.7109272
#> 141 HERVK11-int ZNF496 g.net2 g 0.8389736
#> 142 HERVK11D-int ZNF140 g.net2 g 0.8739821
#> 143 HERVK13-int ZSCAN12 g.net2 g 0.5904506
#> 144 HERVK14-int ZNF282 g.net2 g 0.9869623
#> 145 HERVK14-int ZNF431 g.net2 g 0.9869623
#> 146 HERVK14C-int ZNF430 g.net1 g 0.8373734
#> 147 HERVK3-int ZNF337 g.net2 g 0.6790057
#> 148 HERVK9-int ZNF561 g.net2 g 0.8410933
#> 149 HERVK9-int ZSCAN12 g.net2 g 0.8451415
#> 150 HERVKC4-int ZNF24 g.net1 g 0.7479862
#> 151 HERVKC4-int ZNF561 g.net2 g 0.5354851
#> 152 HERVL18-int TRIM28 g.net2 g 0.6618559
#> 153 HERVL18-int ZNF140 g.net2 g 0.4585152
#> 154 HERVL18-int ZNF211 g.net2 g 0.4865452
#> 155 HERVL18-int ZNF24 g.net1 g 0.5915174
#> 156 HERVL18-int ZNF267 g.net2 g 0.4865452
#> 157 HERVL40-int ZNF317 g.net1 g 0.5862575
#> 158 HERVL40-int ZNF334 g.net1 g 0.6135793
#> 159 HERVL40-int ZNF746 g.net2 g 0.7564645
#> 160 HERVL66-int ZNF430 g.net2 g 0.4665660
#> 161 HERVL66-int ZNF496 g.net2 g 0.6417549
#> 162 HERVP71A-int ZNF317 g.net1 g 0.7151507
#> 163 HERVP71A-int ZNF430 g.net2 g 0.7801663
#> 164 HSAT5 ZNF195 g.net2 g 0.7256714
#> 165 HSAT5 ZNF354A g.net2 g 0.4750280
#> 166 HUERS-P1-int ZNF282 a a 0.6982511
#> 167 HUERS-P1-int ZNF431 g.net2 g 0.5747018
#> 168 HUERS-P2-int ZKSCAN8 g.net2 g 0.5747018
#> 169 HUERS-P2-int ZNF354A g.net1 g 0.7457307
#> 170 HUERS-P2-int ZNF561 g.net2 g 0.5696227
#> 171 HUERS-P3-int ZNF282 g.net2 g 0.5314866
#> 172 HUERS-P3-int ZNF334 g.net1 g 0.8768342
#> 173 HUERS-P3-int ZNF431 g.net2 g 0.5314866
#> 174 Harlequin-int ZNF354A g.net1 g 0.4426046
#> 175 Harlequin-int ZNF561 g.net2 g 0.5009517
#> 176 Helitron1Na_Mam ZNF211 g.net2 g 0.8497457
#> 177 Helitron1Na_Mam ZNF267 g.net2 g 0.8497457
#> 178 Helitron1Na_Mam ZNF3 g.net1 g 0.6412666
#> 179 Helitron1Na_Mam ZNF320 g.net1 g 0.6412666
#> 180 Helitron1Na_Mam ZNF324 g.net1 g 0.8912033
#> 181 Helitron1Na_Mam ZNF444 g.net1 g 0.6412666
#> 182 Helitron1Na_Mam ZNF496 g.net2 g 0.6978798
#> 183 Helitron1Na_Mam ZNF589 g.net1 g 0.6412666
#> 184 Helitron1Na_Mam ZNF75A g.net1 g 0.6412666
#> 185 Helitron1Na_Mam ZNF786 g.net1 g 0.6412666
#> 186 Helitron1Nb_Mam ZNF746 g.net2 g 0.8939589
#> 187 Helitron2Na_Mam TRIM28 g.net2 g 0.4461280
#> 188 Helitron2Na_Mam ZNF140 g.net2 g 0.6494686
#> 189 Kanga11a ZNF267 g.net1 g 0.4950773
#> 190 Kanga11a ZNF777 g.net1 g 0.8929478
#> 191 Kanga1b TRIM28 g.net2 g 0.6707556
#> 192 Kanga1b ZNF140 g.net2 g 0.8740963
#> 193 Kanga1b ZNF430 g.net2 g 0.8229550
#> 194 Kanga1d TRIM28 g.net2 g 0.9893676
#> 195 Kanga1d ZNF430 g.net2 g 0.5043430
#> 196 Kanga1d ZNF496 g.net2 g 0.6039778
#> 197 Kanga2_a ZNF317 g.net1 g 0.6381534
#> 198 Kanga2_a ZSCAN12 g.net2 g 0.5834679
#> 199 L1HS ZNF282 g.net2 g 0.6368914
#> 200 L1HS ZNF431 g.net2 g 0.6368914
#> [ reached 'max' / getOption("max.print") -- omitted 1178 rows ]
#>
#> $network
#>
#> attr(,"class")
#> [1] "CoDiNA.plot" "list"
#>
#> $network
#> IGRAPH d895448 UN-- 596 1378 --
#> + attr: name (v/c), cluster (v/n), degree (v/n), value (v/n), size
#> | (v/n), Phi (v/c), pval_Phi (v/n), Group_pval_Phi (v/c), Phi_tilde
#> | (v/c), pval_Phi_Tilde (v/n), Group_pval_Phi_tilde (v/c), a (v/n), g
#> | (v/n), b (v/n), label (v/c), title (v/c), GROUP_FULL (v/c), color
#> | (v/c), frame.color (v/c), color.border (v/c), shape (v/c), Label
#> | (e/c), L1 (e/c), L2 (e/c), group (e/c), Score (e/n), Phi (e/c), color
#> | (e/c), width (e/n), title (e/c)
#> + edges from d895448 (vertex names):
#> [1] (GAATG)n--ZNF211 (GAATG)n--ZNF267 (GAATG)n--ZNF746 AluJb --ZNF282
#> [5] AluJb --ZNF431 AluJo --TRIM28 AluJo --ZNF140 AluJr --ZSCAN12
#> + ... omitted several edges
#>
#> $znfName
#> [1] "ZNF337" "ZNF444" "ZNF334" "ZNF195" "ZNF589" "ZNF84" "ZNF431"
#> [8] "ZNF561" "ZNF430" "ZNF200" "ZSCAN12" "ZNF45" "ZNF248" "ZNF496"
#> [15] "ZNF75A" "ZNF282" "ZNF778" "ZKSCAN8" "ZNF317" "ZNF514" "ZNF140"
#> [22] "ZNF226" "ZNF175" "ZNF777" "ZNF354A" "TRIM28" "ZNF324" "ZFP69"
#> [29] "ZNF24" "ZNF555" "ZNF3" "ZNF565" "ZNF320" "ZNF786" "ZNF184"
#> [36] "ZSCAN9" "ZNF211" "ZNF746" "ZNF267"
#>
#> $teName
#> [1] "AluSx3" "HERV1_I-int" "HERVIP10F-int" "HERVK3-int"
#> [5] "HERVL40-int" "Helitron1Nb_Mam" "Kanga1a" "L1P4c"
#> [9] "L1P5" "L1PB" "LTR10B" "LTR10D"
#> [13] "LTR10G" "LTR38" "LTR40c" "LTR44"
#> [17] "LTR46-int" "LTR46" "LTR4" "LTR72B"
#> [21] "LTR7Y" "LTR86B2" "LTR88a" "MER121"
#> [25] "MER34C_" "MER52C" "MER57E1" "MER63B"
#> [29] "MER68-int" "MER70C" "MER89-int" "MLT1A1-int"
#> [33] "MLT1E2-int" "MLT2B5" "MamGypLTR1c" "Mam_R4"
#> [37] "ORSL-2a" "SATR2" "Tigger6b" "Eulor2C"
#> [41] "HERV1_LTRd" "HSAT6" "LTR59" "LTR60"
#> [45] "LTR69" "MER4-int" "MLT1E1A-int" "UCON20"
#> [49] "UCON6" "X7D_LINE" "HERVK22-int" "UCON9"
#> [53] "AluYb8" "HSAT5" "LTR76" "MADE2"
#> [57] "MER123" "MER57E2" "UCON2" "ALR/Alpha"
#> [61] "HSATI" "LTR19C" "MER135" "MER70-int"
#> [65] "MLT1K-int" "Tigger14a" "Tigger16a" "MER110A"
#> [69] "MER2" "PrimLTR79" "AluJb" "AluJr4"
#> [73] "AluSg4" "AluSq10" "AluSq4" "AluYk11"
#> [77] "CR1_Mam" "Charlie10" "Charlie13b" "Charlie15a"
#> [81] "Charlie20a" "Charlie24" "Charlie26a" "Charlie4a"
#> [85] "Charlie6" "Charlie7a" "D20S16" "ERV3-16A3_I-int"
#> [89] "ERVL-int" "Eulor2A" "Eulor3" "FordPrefect"
#> [93] "GSAT" "HAL1" "HERV16-int" "HERVE_a-int"
#> [97] "HERVH-int" "HERVK14-int" "HERVP71A-int" "HUERS-P1-int"
#> [101] "HUERS-P2-int" "HUERS-P3-int" "L1HS" "L1M3c"
#> [105] "L1M3f" "L1M4" "L1MA4A" "L1MA8"
#> [109] "L1MA9" "L1MB3" "L1MB8" "L1MC1"
#> [113] "L1MDa" "L1ME3F" "L1MEa" "L1MEb"
#> [117] "L1MEg2" "L1P3" "L1P4d" "L1PA12"
#> [121] "L1PA13" "L1PA3" "L1PB1" "LOR1-int"
#> [125] "LOR1b" "LTR12E" "LTR12F" "LTR13_"
#> [129] "LTR14B" "LTR16A2" "LTR16B1" "LTR16D"
#> [133] "LTR16E2" "LTR18B" "LTR19A" "LTR22A"
#> [137] "LTR26B" "LTR27" "LTR2B" "LTR2C"
#> [141] "LTR33B" "LTR35" "LTR37A" "LTR37B"
#> [145] "LTR3A" "LTR3B_" "LTR40A1" "LTR42"
#> [149] "LTR43" "LTR48" "LTR50" "LTR52"
#> [153] "LTR61" "LTR64" "LTR68" "LTR75B"
#> [157] "LTR75_1" "LTR77" "LTR7C" "LTR81"
#> [161] "LTR83" "LTR84a" "LTR85c" "LTR86A1"
#> [165] "LTR87" "LTR88b" "LTR88c" "Looper"
#> [169] "MER104" "MER107" "MER110" "MER129"
#> [173] "MER1B" "MER21B" "MER34A" "MER34D"
#> [177] "MER41A" "MER41B" "MER45A" "MER45B"
#> [181] "MER48" "MER4A1_" "MER4A" "MER4B"
#> [185] "MER51A" "MER51E" "MER52D" "MER5C1"
#> [189] "MER61-int" "MER63A" "MER63C" "MER65B"
#> [193] "MER66C" "MER67B" "MER70B" "MER72"
#> [197] "MER74A" "MER75B" "MER76" "MER77"
#> [201] "MER83" "MER84-int" "MER84" "MER87B"
#> [205] "MER8" "MER92B" "MER96" "MER9a2"
#> [209] "MLT1A-int" "MLT1A" "MLT1C" "MLT1E1A"
#> [213] "MLT1F1" "MLT1G" "MLT1H1" "MLT1J1-int"
#> [217] "MLT1J1" "MLT1J2-int" "MLT2B1" "MLT2D"
#> [221] "MLT2E" "MSR1" "MST-int" "MSTB"
#> [225] "MSTC-int" "MSTD-int" "MSTD" "MamGypLTR1a"
#> [229] "MamRep488" "PABL_A-int" "PRIMA4-int" "PRIMA4_LTR"
#> [233] "Ricksha_c" "SVA_B" "THE1B-int" "THE1B"
#> [237] "Tigger12A" "Tigger3a" "Tigger3d" "Tigger6a"
#> [241] "UCON12" "UCON19" "UCON25" "X7B_LINE"
#> [245] "Zaphod2" "Zaphod" "AluSq2" "AluSz6"
#> [249] "AluY" "AluYh9" "Charlie14a" "Charlie18a"
#> [253] "GSATII" "HERV9-int" "HERVK9-int" "HERVKC4-int"
#> [257] "Harlequin-int" "L1M3b" "L1MB4" "L1MC4"
#> [261] "L1MDb" "L1ME2z" "L1ME3C" "L1ME3E"
#> [265] "L1ME4a" "L1MEg" "L1PA16" "L1PA5"
#> [269] "L1PA7" "L1PB2" "LTR10A" "LTR15"
#> [273] "LTR16A" "LTR16C" "LTR1C" "LTR22"
#> [277] "LTR2" "LTR33" "LTR45B" "LTR5"
#> [281] "LTR73" "LTR78B" "LTR86B1" "LTR90A"
#> [285] "MER11A" "MER11C" "MER1A" "MER21-int"
#> [289] "MER30" "MER31A" "MER39" "MER3"
#> [293] "MER41-int" "MER4A1" "MER51B" "MER52-int"
#> [297] "MER52A" "MER58C" "MER65D" "MER66D"
#> [301] "MER68B" "MER6A" "MER90" "MER94B"
#> [305] "MLT1G1-int" "MLT1L" "MLT1M" "MSTB2-int"
#> [309] "Merlin1_HS" "Tigger16b" "Tigger4a" "X6A_LINE"
#> [313] "Zaphod3" "AluJr" "AluSc8" "AluSc"
#> [317] "AluSg7" "AluSq" "AluSz" "AluYa8"
#> [321] "AmnSINE1" "Arthur1A" "Arthur1B" "Charlie1a"
#> [325] "Charlie21a" "Charlie3" "ERVL-B4-int" "FLAM_A"
#> [329] "FRAM" "HERV17-int" "HERVK11-int" "HERVL66-int"
#> [333] "Kanga1" "Kanga1b" "Kanga1c" "Kanga1d"
#> [337] "Kanga2_a" "L1M4b" "L1M4c" "L1M5"
#> [341] "L1M" "L1MA5A" "L1MB5" "L1MB7"
#> [345] "L1MC3" "L1MC4a" "L1MCa" "L1MD1"
#> [349] "L1MD2" "L1MD3" "L1ME1" "L1ME2"
#> [353] "L1ME3A" "L1ME3B" "L1MEc" "L1PA10"
#> [357] "L1PA4" "L1PA8" "L1PA8A" "L1PB3"
#> [361] "L1PBa" "L1PREC2" "L2" "L2a"
#> [365] "L2b" "L2c" "L3" "LTR12B"
#> [369] "LTR12D" "LTR13" "LTR16B2" "LTR1B"
#> [373] "LTR26E" "LTR34" "LTR36" "LTR3"
#> [377] "LTR41" "LTR5B" "LTR66" "LTR6A"
#> [381] "LTR72" "LTR81C" "LTR82A" "LTR84b"
#> [385] "LTR86A2" "LTR8A" "MER102b" "MER105"
#> [389] "MER117" "MER11B" "MER125" "MER132"
#> [393] "MER21A" "MER31-int" "MER33" "MER34A1"
#> [397] "MER34C" "MER46C" "MER49" "MER4E1"
#> [401] "MER51-int" "MER57-int" "MER57E3" "MER5A1"
#> [405] "MER61A" "MER61C" "MER61D" "MER61E"
#> [409] "MER67A" "MER68" "MER70A" "MER74C"
#> [413] "MER75" "MER91B" "MER92A" "MER95"
#> [417] "MER97c" "MER9B" "MERX" "MIR"
#> [421] "MIRb" "MIRc" "MLT1A0" "MLT1B"
#> [425] "MLT1D" "MLT1F" "MLT1G-int" "MLT1G1"
#> [429] "MLT1G3" "MLT1H2" "MLT1I" "MLT1J-int"
#> [433] "MLT2A2" "MSTA" "MSTB1" "MamGypLTR1d"
#> [437] "MamGypLTR2c" "MamRep1527" "MamRep564" "MamRep605"
#> [441] "Ricksha_0" "SVA_A" "THE1A" "Tigger12c"
#> [445] "Tigger13a" "Tigger1" "Tigger3c" "Tigger8"
#> [449] "Tigger9a" "UCON7" "X7A_LINE" "X7C_LINE"
#> [453] "AluYc3" "Charlie10b" "HERV-Fc1_LTR1" "L1PBb"
#> [457] "LTR35B" "LTR53" "MER127" "MER131"
#> [461] "MLT1-int" "MLT1C-int" "AluJo" "AluSc5"
#> [465] "AluSg" "AluSp" "AluSx1" "AluSx4"
#> [469] "AluSx" "AluYc" "AluYk12" "Arthur1"
#> [473] "Arthur1C" "BLACKJACK" "Charlie13a" "Charlie1"
#> [477] "Charlie2a" "Charlie2b" "Charlie4z" "Charlie8"
#> [481] "Charlie9" "FAM" "FLAM_C" "GSATX"
#> [485] "HAL1b" "HERV15-int" "HERV35I-int" "HERV4_I-int"
#> [489] "HERVE-int" "HERVI-int" "HERVK-int" "HERVK13-int"
#> [493] "HERVS71-int" "HSMAR2" "Helitron2Na_Mam" "L1M2"
#> [497] "L1M3" "L1M3d" "L1M3e" "L1M7"
#> [501] "L1MA10" "L1MA2" "L1MA3" "L1MA4"
#> [505] "L1MA6" "L1MA7" "L1MB1" "L1MB2"
#> [509] "L1MC5" "L1MC" "L1MCc" "L1MD"
#> [513] "L1MEd" "L1P2" "L1P3b" "L1P4a"
#> [517] "L1P4b" "L1PA11" "L1PA14" "L1PA15"
#> [521] "L1PA17" "L1PA2" "L1PBa1" "L5"
#> [525] "LTR10B1" "LTR10C" "LTR12C" "LTR12_"
#> [529] "LTR14" "LTR14C" "LTR16A1" "LTR16E1"
#> [533] "LTR17" "LTR21A" "LTR23" "LTR24"
#> [537] "LTR26" "LTR27B" "LTR31" "LTR32"
#> [541] "LTR33A_" "LTR38-int" "LTR38B" "LTR39-int"
#> [545] "LTR40a" "LTR40b" "LTR45" "LTR47B"
#> [549] "LTR48B" "LTR52-int" "LTR56" "LTR67B"
#> [553] "LTR71B" "LTR75" "LTR79" "LTR82B"
#> [557] "LTR85b" "LTR86C" "LTR8" "LTR90B"
#> [561] "MADE1" "MER101-int" "MER106A" "MER112"
#> [565] "MER113A" "MER115" "MER119" "MER20"
#> [569] "MER21C" "MER2B" "MER30B" "MER31B"
#> [573] "MER34-int" "MER39B" "MER41D" "MER41G"
#> [577] "MER44D" "MER47A" "MER4D1" "MER4D"
#> [581] "MER53" "MER54A" "MER54B" "MER57B2"
#> [585] "MER58B" "MER58D" "MER5A" "MER5B"
#> [589] "MER5C" "MER61F" "MER66-int" "MER67C"
#> [593] "MER6B" "MER81" "MER83B-int" "MER91A"
#> [597] "MER91C" "MER94" "MER97a" "MER97d"
#> [601] "MER99" "MER9a1" "MER9a3" "MIR3"
#> [605] "MLT-int" "MLT1A1" "MLT1B-int" "MLT1E1"
#> [609] "MLT1E2" "MLT1F1-int" "MLT1F2" "MLT1H-int"
#> [613] "MLT1H" "MLT1I-int" "MLT1J" "MLT1K"
#> [617] "MLT1N2-int" "MLT1N2" "MSTA-int" "MSTB-int"
#> [621] "MamRep137" "MamRep38" "ORSL-2b" "ORSL"
#> [625] "PRIMAX-int" "REP522" "Ricksha_b" "TAR1"
#> [629] "THE1A-int" "THE1C" "THE1D-int" "THE1D"
#> [633] "Tigger11a" "Tigger12" "Tigger15a" "Tigger1a_Art"
#> [637] "Tigger2" "Tigger2b_Pri" "Tigger3" "Tigger3b"
#> [641] "Tigger4" "Tigger4b" "Tigger7" "UCON1"
#> [645] "UCON28b" "BSR/Beta" "Charlie19a" "Charlie1b"
#> [649] "Charlie23a" "Charlie4" "HERVIP10FH-int" "Helitron1Na_Mam"
#> [653] "L1M3de" "L1M6" "L1ME3" "L1P1"
#> [657] "LTR10E" "LTR1D" "LTR43B" "LTR54B"
#> [661] "MARNA" "MER102c" "MER47B" "MER50"
#> [665] "MER65-int" "MER90a" "MLT1A0-int" "MLT2A1"
#> [669] "MLT2F" "MSTB1-int" "MSTB2" "MamRep1894"
#> [673] "MamRep434" "SVA_D" "Tigger5" "X8_LINE"
#> [677] "MER130" "Eulor5B" "HERV30-int" "7SK"
#> [681] "Charlie25" "HERVH48-int" "HUERS-P3b-int" "Kanga11a"
#> [685] "L1M2c" "L1P4" "LTR12" "LTR18A"
#> [689] "LTR19B" "LTR28" "LTR41B" "LTR6B"
#> [693] "LTR71A" "LTR78" "LTR7" "LTR81AB"
#> [697] "LTR9" "MER101" "MER124" "MER41C"
#> [701] "MER41E" "MER65A" "MLT1D-int" "MLT1G3-int"
#> [705] "MLT1H1-int" "PRIMA41-int" "UCON28a" "UCON29"
#> [709] "X5B_LINE" "Eulor12" "MER133A" "MER57C1"
#> [713] "SST1" "Tigger1a_Mars" "UCON12A" "UCON31"
#> [717] "LTR25" "PABL_B-int" "UCON21" "AluYg6"
#> [721] "Charlie16a" "Charlie7" "Eulor9C" "FordPrefect_a"
#> [725] "HERVK11D-int" "HERVL-int" "HERVL18-int" "L1MC2"
#> [729] "L1MCb" "L1ME3D" "L1MEg1" "L1PA6"
#> [733] "LTR16B" "LTR33A" "LTR39" "LTR51"
#> [737] "LTR54" "LTR55" "LTR9B" "MER103C"
#> [741] "MER34B" "MER44A" "MER50-int" "MER57F"
#> [745] "MER58A" "MER61B" "MER66B" "MER85"
#> [749] "MER89" "MLT1E3-int" "MLT1F-int" "MLT1L-int"
#> [753] "MLT2B2" "MLT2B3" "MamRep1879" "X1_LINE"
#> [757] "X9_LINE" "ACRO1" "Eulor6D" "HERV-Fc1_LTR3"
#> [761] "LTR1" "LTR58" "MER11D" "MER73"
#> [765] "MER97b" "PABL_B" "Ricksha_a" "UCON17"
#> [769] "UCON8" "MER92C" "UCON15" "UCON11"
#> [773] "HERV-Fc2-int" "(CATTC)n" "(GAATG)n" "AluYa5"
#> [777] "AluYk4" "Charlie17a" "Charlie5" "ERV3-16A3_LTR"
#> [781] "Eulor10" "Eulor11" "Eulor2B" "Eulor5A"
#> [785] "Eulor6A" "Eulor9B" "HERV1_LTRa" "HERV1_LTRc"
#> [789] "HERV1_LTRe" "HERVK14C-int" "HERVL32-int" "L1M1"
#> [793] "L1M2a1" "L1M2a" "L1M2b" "L1ME5"
#> [797] "L1P" "L1PB4" "L3b" "LOR1a"
#> [801] "LTR10F" "LTR13A" "LTR16D1" "LTR16D2"
#> [805] "LTR19-int" "LTR23-int" "LTR24B" "LTR25-int"
#> [809] "LTR30" "LTR33C" "LTR38C" "LTR3B"
#> [813] "LTR45C" "LTR5A" "LTR62" "LTR65"
#> [817] "LTR70" "LTR7B" "LTR81B" "LTR85a"
#> [821] "MER101B" "MER102a" "MER110-int" "MER113"
#> [825] "MER136" "MER34" "MER34C2" "MER44B"
#> [829] "MER44C" "MER4C" "MER4D0" "MER51C"
#> [833] "MER57A1" "MER57B1" "MER57C2" "MER67D"
#> [837] "MER6" "MER6C" "MER74B" "MER77B"
#> [841] "MER83A-int" "MER83C" "MER87" "MER96B"
#> [845] "MLT1E-int" "MLT1E3" "MLT1H2-int" "MLT1J2"
#> [849] "MLT2B4" "MLT2C1" "MSTC" "MamGypLTR1b"
#> [853] "MamGypLTR2b" "MamRep4096" "Plat_L3" "SVA_C"
#> [857] "THE1-int" "THE1C-int" "Tigger9b" "UCON16"
#> [861] "UCON23" "UCON5" "Charlie22a" "Eulor1"
#> [865] "Eulor8" "HSAT4" "L1M3a" "L1PA15-16"
#> [869] "LTR24C" "LTR29" "LTR47A" "LTR49"
#> [873] "LTR80B" "LTR81A" "MER106B" "MER126"
#> [877] "MER133B" "MER20B" "MER34B-int" "MER4E"
#> [881] "MER57A-int" "MER63D" "MER65C" "MLT1F2-int"
#> [885] "SATR1" "Tigger2a"
#>