(135 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR396g_MI0023099_127                                             249   2e-67
mdm-MIR396f_MI0023098_153                                             187   6e-49
ptc-MIR396f_MI0002330_Populus_trichocarpa_miR396f_stem-loop_127        52   4e-08
tcc-MIR396a_MI0017511_Theobroma_cacao_miR396a_stem-loop_146            46   2e-06
pab-MIR396b_MI0016123_Picea_abies_miR396b_stem-loop_116                44   9e-06
tcc-MIR396e_MI0017515_Theobroma_cacao_miR396e_stem-loop_146            44   9e-06
ptc-MIR396g_MI0002331_Populus_trichocarpa_miR396g_stem-loop_168        44   9e-06
tcc-MIR396d_MI0017514_Theobroma_cacao_miR396d_stem-loop_182            44   9e-06
pab-MIR396c_MI0016124_Picea_abies_miR396c_stem-loop_143                44   9e-06
smo-MIR396_MI0006060_Selaginella_moellendorffii_miR396_stem-loop...    42   4e-05
vvi-MIR396c_MI0007955_Vitis_vinifera_miR396c_stem-loop_108             42   4e-05
csi-MIR396a_MI0016706_Citrus_sinensis_miR396a_stem-loop_153            40   1e-04
osa-MIR396b_MI0001047_Oryza_sativa_miR396b_stem-loop_116               40   1e-04
ptc-MIR396c_MI0002327_Populus_trichocarpa_miR396c_stem-loop_102        40   1e-04
aqc-MIR396b_MI0012095_Aquilegia_caerulea_miR396b_stem-loop_89          38   6e-04
gma-MIR396e_MI0016586_Glycine_max_miR396e_stem-loop_114                38   6e-04
csi-MIR396b_MI0016707_Citrus_sinensis_miR396b_stem-loop_134            38   6e-04
gma-MIR396h_MI0018679_Glycine_max_miR396h_stem-loop_148                38   6e-04

>mdm-MIR396g_MI0023099_127
          Length = 127

 Score =  249 bits (125), Expect = 2e-67
 Identities = 127/127 (100%)
 Strand = Plus / Plus

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

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

                  
Query: 126 caggatt 132
           |||||||
Sbjct: 121 caggatt 127


>mdm-MIR396f_MI0023098_153
          Length = 153

 Score =  187 bits (94), Expect = 6e-49
 Identities = 121/130 (93%)
 Strand = Plus / Plus

                                                                       
Query: 2   agatgatcctccttgrgattttccacggctttcttgaactgtgcagtgtgcagaagagtt 61
           |||||||||||| ||  |||||||||||||||||||||||||||||| | ||||||| ||
Sbjct: 11  agatgatcctccctgtaattttccacggctttcttgaactgtgcagtttccagaagaatt 70

                                                                       
Query: 62  aaactggcagaaatttttcatgcagttacataaacagttcaagaaagctgtgaaaaacca 121
           ||||||||||||||||||||||||| |||| |||||||||||||||||||||||||||||
Sbjct: 71  aaactggcagaaatttttcatgcagatacaaaaacagttcaagaaagctgtgaaaaacca 130

                     
Query: 122 caggcaggat 131
           | ||||||||
Sbjct: 131 ccggcaggat 140


>ptc-MIR396f_MI0002330_Populus_trichocarpa_miR396f_stem-loop_127
          Length = 127

 Score = 52.3 bits (26), Expect = 4e-08
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                    
Query: 18 gattttccacggctttcttgaactgt 43
          ||||||||||||||||||||||||||
Sbjct: 7  gattttccacggctttcttgaactgt 32


>tcc-MIR396a_MI0017511_Theobroma_cacao_miR396a_stem-loop_146
          Length = 146

 Score = 46.3 bits (23), Expect = 2e-06
 Identities = 26/27 (96%)
 Strand = Plus / Plus

                                     
Query: 18 gattttccacggctttcttgaactgtg 44
          |||||||||| ||||||||||||||||
Sbjct: 17 gattttccacagctttcttgaactgtg 43



 Score = 42.3 bits (21), Expect = 4e-05
 Identities = 27/29 (93%)
 Strand = Plus / Minus

                                        
Query: 95  acagttcaagaaagctgtgaaaaaccaca 123
           ||||||||||||||||||| |||| ||||
Sbjct: 42  acagttcaagaaagctgtggaaaatcaca 14


>pab-MIR396b_MI0016123_Picea_abies_miR396b_stem-loop_116
          Length = 116

 Score = 44.3 bits (22), Expect = 9e-06
 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 = 44.3 bits (22), Expect = 9e-06
 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 = 44.3 bits (22), Expect = 9e-06
 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 = 44.3 bits (22), Expect = 9e-06
 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 = 44.3 bits (22), Expect = 9e-06
 Identities = 22/22 (100%)
 Strand = Plus / Plus

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


>smo-MIR396_MI0006060_Selaginella_moellendorffii_miR396_stem-
          loop_168
          Length = 168

 Score = 42.3 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

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


>vvi-MIR396c_MI0007955_Vitis_vinifera_miR396c_stem-loop_108
          Length = 108

 Score = 42.3 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Minus

                                
Query: 93  aaacagttcaagaaagctgtg 113
           |||||||||||||||||||||
Sbjct: 34  aaacagttcaagaaagctgtg 14


>csi-MIR396a_MI0016706_Citrus_sinensis_miR396a_stem-loop_153
          Length = 153

 Score = 40.3 bits (20), Expect = 1e-04
 Identities = 32/36 (88%)
 Strand = Plus / Plus

                                              
Query: 8  tcctccttgrgattttccacggctttcttgaactgt 43
          ||||| ||| ||| |||||| |||||||||||||||
Sbjct: 7  tcctctttgtgatcttccacagctttcttgaactgt 42



 Score = 38.3 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 = 40.3 bits (20), Expect = 1e-04
 Identities = 26/28 (92%)
 Strand = Plus / Minus

                                       
Query: 96  cagttcaagaaagctgtgaaaaaccaca 123
           |||||||||||||||||| || ||||||
Sbjct: 31  cagttcaagaaagctgtggaagaccaca 4


>ptc-MIR396c_MI0002327_Populus_trichocarpa_miR396c_stem-loop_102
          Length = 102

 Score = 40.3 bits (20), Expect = 1e-04
 Identities = 20/20 (100%)
 Strand = Plus / Minus

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


>aqc-MIR396b_MI0012095_Aquilegia_caerulea_miR396b_stem-loop_89
          Length = 89

 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Minus

                                  
Query: 91  ataaacagttcaagaaagctgtg 113
           ||||| |||||||||||||||||
Sbjct: 26  ataaaaagttcaagaaagctgtg 4


>gma-MIR396e_MI0016586_Glycine_max_miR396e_stem-loop_114
          Length = 114

 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

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



 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 19/19 (100%)
 Strand = Plus / Minus

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


>csi-MIR396b_MI0016707_Citrus_sinensis_miR396b_stem-loop_134
          Length = 134

 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Minus

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



 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 20 ttttccacggctttcttgaactg 42
          |||||||| ||||||||||||||
Sbjct: 18 ttttccacagctttcttgaactg 40


>gma-MIR396h_MI0018679_Glycine_max_miR396h_stem-loop_148
          Length = 148

 Score = 38.3 bits (19), Expect = 6e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

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



 Score = 38.3 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.