(136 letters)

Database: hairpin_length.fa 
           18,432 sequences; 1,887,117 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR396f_MI0023098_153                                             270   1e-73
mdm-MIR396g_MI0023099_127                                             178   3e-46
ptc-MIR396f_MI0002330_Populus_trichocarpa_miR396f_stem-loop_127        50   2e-07
csi-MIR396b_MI0016707_Citrus_sinensis_miR396b_stem-loop_134            46   3e-06
pab-MIR396b_MI0016123_Picea_abies_miR396b_stem-loop_116                44   1e-05
tcc-MIR396e_MI0017515_Theobroma_cacao_miR396e_stem-loop_146            44   1e-05
ptc-MIR396g_MI0002331_Populus_trichocarpa_miR396g_stem-loop_168        44   1e-05
tcc-MIR396d_MI0017514_Theobroma_cacao_miR396d_stem-loop_182            44   1e-05
pab-MIR396c_MI0016124_Picea_abies_miR396c_stem-loop_143                44   1e-05
vvi-MIR396c_MI0007955_Vitis_vinifera_miR396c_stem-loop_108             44   1e-05
tcc-MIR396a_MI0017511_Theobroma_cacao_miR396a_stem-loop_146            44   1e-05
smo-MIR396_MI0006060_Selaginella_moellendorffii_miR396_stem-loop...    42   4e-05
mdm-MIR396b_MI0023094_168                                              40   2e-04
ptc-MIR396c_MI0002327_Populus_trichocarpa_miR396c_stem-loop_102        40   2e-04
csi-MIR396a_MI0016706_Citrus_sinensis_miR396a_stem-loop_153            38   6e-04
osa-MIR396b_MI0001047_Oryza_sativa_miR396b_stem-loop_116               38   6e-04
gma-MIR396e_MI0016586_Glycine_max_miR396e_stem-loop_114                38   6e-04
gma-MIR396h_MI0018679_Glycine_max_miR396h_stem-loop_148                38   6e-04

>mdm-MIR396f_MI0023098_153
          Length = 153

 Score =  270 bits (136), Expect = 1e-73
 Identities = 136/136 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   cagatgatcctccctgtaattttccacggctttcttgaactgtgcagtttccagaagaat 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10  cagatgatcctccctgtaattttccacggctttcttgaactgtgcagtttccagaagaat 69

                                                                       
Query: 61  taaactggcagaaatttttcatgcagatacaaaaacagttcaagaaagctgtgaaaaacc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 70  taaactggcagaaatttttcatgcagatacaaaaacagttcaagaaagctgtgaaaaacc 129

                           
Query: 121 accggcaggatctgag 136
           ||||||||||||||||
Sbjct: 130 accggcaggatctgag 145


>mdm-MIR396g_MI0023099_127
          Length = 127

 Score =  178 bits (90), Expect = 3e-46
 Identities = 117/126 (92%)
 Strand = Plus / Plus

                                                                       
Query: 6   gatcctccctgtaattttccacggctttcttgaactgtgcagtttccagaagaattaaac 65
           |||||||| ||  |||||||||||||||||||||||||||||| | ||||||| ||||||
Sbjct: 1   gatcctccttgrgattttccacggctttcttgaactgtgcagtgtgcagaagagttaaac 60

                                                                       
Query: 66  tggcagaaatttttcatgcagatacaaaaacagttcaagaaagctgtgaaaaaccaccgg 125
           ||||||||||||||||||||| |||| |||||||||||||||||||||||||||||| ||
Sbjct: 61  tggcagaaatttttcatgcagttacataaacagttcaagaaagctgtgaaaaaccacagg 120

                 
Query: 126 caggat 131
           ||||||
Sbjct: 121 caggat 126


>ptc-MIR396f_MI0002330_Populus_trichocarpa_miR396f_stem-loop_127
          Length = 127

 Score = 50.1 bits (25), Expect = 2e-07
 Identities = 25/25 (100%)
 Strand = Plus / Plus

                                   
Query: 19 attttccacggctttcttgaactgt 43
          |||||||||||||||||||||||||
Sbjct: 8  attttccacggctttcttgaactgt 32



 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 28/30 (93%)
 Strand = Plus / Plus

                                         
Query: 89  acaaaaacagttcaagaaagctgtgaaaaa 118
           |||||||||||||||||||||  |||||||
Sbjct: 92  acaaaaacagttcaagaaagccctgaaaaa 121



 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 25/27 (92%)
 Strand = Plus / Minus

                                      
Query: 17  taattttccacggctttcttgaactgt 43
           ||||||| || ||||||||||||||||
Sbjct: 124 taatttttcagggctttcttgaactgt 98


>csi-MIR396b_MI0016707_Citrus_sinensis_miR396b_stem-loop_134
          Length = 134

 Score = 46.1 bits (23), Expect = 3e-06
 Identities = 35/39 (89%)
 Strand = Plus / Plus

                                                 
Query: 4  atgatcctccctgtaattttccacggctttcttgaactg 42
          |||||||||  |||| |||||||| ||||||||||||||
Sbjct: 2  atgatcctctttgtatttttccacagctttcttgaactg 40



 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Minus

                                  
Query: 96  cagttcaagaaagctgtgaaaaa 118
           |||||||||||||||||| ||||
Sbjct: 40  cagttcaagaaagctgtggaaaa 18


>pab-MIR396b_MI0016123_Picea_abies_miR396b_stem-loop_116
          Length = 116

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 20 ttttccacggctttcttgaact 41
          ||||||||||||||||||||||
Sbjct: 7  ttttccacggctttcttgaact 28


>tcc-MIR396e_MI0017515_Theobroma_cacao_miR396e_stem-loop_146
          Length = 146

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Minus

                                 
Query: 20  ttttccacggctttcttgaact 41
           ||||||||||||||||||||||
Sbjct: 126 ttttccacggctttcttgaact 105


>ptc-MIR396g_MI0002331_Populus_trichocarpa_miR396g_stem-loop_168
          Length = 168

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 20 ttttccacggctttcttgaact 41
          ||||||||||||||||||||||
Sbjct: 9  ttttccacggctttcttgaact 30


>tcc-MIR396d_MI0017514_Theobroma_cacao_miR396d_stem-loop_182
          Length = 182

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 20 ttttccacggctttcttgaact 41
          ||||||||||||||||||||||
Sbjct: 19 ttttccacggctttcttgaact 40


>pab-MIR396c_MI0016124_Picea_abies_miR396c_stem-loop_143
          Length = 143

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 20 ttttccacggctttcttgaact 41
          ||||||||||||||||||||||
Sbjct: 23 ttttccacggctttcttgaact 44


>vvi-MIR396c_MI0007955_Vitis_vinifera_miR396c_stem-loop_108
          Length = 108

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 22/22 (100%)
 Strand = Plus / Minus

                                 
Query: 92  aaaacagttcaagaaagctgtg 113
           ||||||||||||||||||||||
Sbjct: 35  aaaacagttcaagaaagctgtg 14


>tcc-MIR396a_MI0017511_Theobroma_cacao_miR396a_stem-loop_146
          Length = 146

 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 25/26 (96%)
 Strand = Plus / Plus

                                    
Query: 19 attttccacggctttcttgaactgtg 44
          ||||||||| ||||||||||||||||
Sbjct: 18 attttccacagctttcttgaactgtg 43



 Score = 40.1 bits (20), Expect = 2e-04
 Identities = 23/24 (95%)
 Strand = Plus / Minus

                                   
Query: 95  acagttcaagaaagctgtgaaaaa 118
           ||||||||||||||||||| ||||
Sbjct: 42  acagttcaagaaagctgtggaaaa 19



 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 34/39 (87%)
 Strand = Plus / Minus

                                                  
Query: 6   gatcctccctgtaattttccacggctttcttgaactgtg 44
           ||||||| | |||||||||||| ||| || |||||||||
Sbjct: 140 gatcctctcagtaattttccacagctctcatgaactgtg 102


>smo-MIR396_MI0006060_Selaginella_moellendorffii_miR396_stem-
          loop_168
          Length = 168

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 20 ttttccacggctttcttgaac 40
          |||||||||||||||||||||
Sbjct: 9  ttttccacggctttcttgaac 29


>mdm-MIR396b_MI0023094_168
          Length = 168

 Score = 40.1 bits (20), Expect = 2e-04
 Identities = 35/40 (87%)
 Strand = Plus / Plus

                                                  
Query: 3  gatgatcctccctgtaattttccacggctttcttgaactg 42
          ||||||||||  |||| | |||||| ||||||||||||||
Sbjct: 7  gatgatcctctttgtattcttccacagctttcttgaactg 46


>ptc-MIR396c_MI0002327_Populus_trichocarpa_miR396c_stem-loop_102
          Length = 102

 Score = 40.1 bits (20), Expect = 2e-04
 Identities = 20/20 (100%)
 Strand = Plus / Minus

                              
Query: 22 ttccacggctttcttgaact 41
          ||||||||||||||||||||
Sbjct: 94 ttccacggctttcttgaact 75


>csi-MIR396a_MI0016706_Citrus_sinensis_miR396a_stem-loop_153
          Length = 153

 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 95  acagttcaagaaagctgtg 113
           |||||||||||||||||||
Sbjct: 42  acagttcaagaaagctgtg 24


>osa-MIR396b_MI0001047_Oryza_sativa_miR396b_stem-loop_116
          Length = 116

 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 25/27 (92%)
 Strand = Plus / Minus

                                      
Query: 96  cagttcaagaaagctgtgaaaaaccac 122
           |||||||||||||||||| || |||||
Sbjct: 31  cagttcaagaaagctgtggaagaccac 5


>gma-MIR396e_MI0016586_Glycine_max_miR396e_stem-loop_114
          Length = 114

 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 22 ttccacggctttcttgaactgtg 44
          |||||| ||||||||||||||||
Sbjct: 7  ttccacagctttcttgaactgtg 29



 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 95  acagttcaagaaagctgtg 113
           |||||||||||||||||||
Sbjct: 28  acagttcaagaaagctgtg 10


>gma-MIR396h_MI0018679_Glycine_max_miR396h_stem-loop_148
          Length = 148

 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 22 ttccacggctttcttgaactgtg 44
          |||||| ||||||||||||||||
Sbjct: 21 ttccacagctttcttgaactgtg 43



 Score = 38.2 bits (19), Expect = 6e-04
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 95  acagttcaagaaagctgtg 113
           |||||||||||||||||||
Sbjct: 42  acagttcaagaaagctgtg 24


BLASTN 2.2.20 [Feb-08-2009]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.