(157 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR394a_MI0023082_148                                             293   8e-81
mdm-MIR394b_MI0023083_238                                             111   6e-26
ptc-MIR394a_MI0002313_Populus_trichocarpa_miR394a_stem-loop_147        90   2e-19
ptc-MIR394b_MI0002314_Populus_trichocarpa_miR394b_stem-loop_147        88   9e-19
ghr-MIR394a_MI0013543_Gossypium_hirsutum_miR394a_stem-loop_167         86   4e-18
csi-MIR394_MI0016704_Citrus_sinensis_miR394_stem-loop_147              80   2e-16
tcc-MIR394a_MI0017507_Theobroma_cacao_miR394a_stem-loop_120            72   5e-14
aly-MIR394a_MI0014574_Arabidopsis_lyrata_miR394a_stem-loop_220         70   2e-13
aly-MIR394b_MI0014575_Arabidopsis_lyrata_miR394b_stem-loop_160         68   9e-13
gma-MIR394a_MI0016582_Glycine_max_miR394a_stem-loop_157                68   9e-13
bdi-MIR394_MI0018115_Brachypodium_distachyon_miR394_stem-loop_200      66   3e-12
ath-MIR394b_MI0001006_Arabidopsis_thaliana_miR394b_stem-loop_121       58   8e-10
osa-MIR394_MI0001027_Oryza_sativa_miR394_stem-loop_110                 56   3e-09
zma-MIR394b_MI0001795_Zea_mays_miR394b_stem-loop_122                   50   2e-07
vvi-MIR394b_MI0006555_Vitis_vinifera_miR394b_stem-loop_93              50   2e-07
zma-MIR394a_MI0001794_Zea_mays_miR394a_stem-loop_126                   48   8e-07
sbi-MIR394a_MI0001531_Sorghum_bicolor_miR394a_stem-loop_110            48   8e-07
ath-MIR394a_MI0001005_Arabidopsis_thaliana_miR394a_stem-loop_117       46   3e-06
gma-MIR394b_MI0016577_Glycine_max_miR394b_stem-loop_104                44   1e-05
sbi-MIR394b_MI0010889_Sorghum_bicolor_miR394b_stem-loop_77             42   5e-05
vvi-MIR394a_MI0006554_Vitis_vinifera_miR394a_stem-loop_89              42   5e-05
vvi-MIR394c_MI0007953_Vitis_vinifera_miR394c_stem-loop_102             42   5e-05
tcc-MIR394b_MI0017508_Theobroma_cacao_miR394b_stem-loop_125            42   5e-05
gma-MIR394c_MI0017846_Glycine_max_miR394c_stem-loop_110                42   5e-05
ghr-MIR394b_MI0013542_Gossypium_hirsutum_miR394b_stem-loop_165         42   5e-05
ahy-MIR394_MI0015338_Arachis_hypogaea_miR394_stem-loop_96              42   5e-05
ssl-MIR394_MI0019349_Salvia_sclarea_miR394_stem-loop_141               40   2e-04

>mdm-MIR394a_MI0023082_148
          Length = 148

 Score =  293 bits (148), Expect = 8e-81
 Identities = 148/148 (100%)
 Strand = Plus / Plus

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

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

                                       
Query: 126 ttggcttctctttgtaaaacccccgtga 153
           ||||||||||||||||||||||||||||
Sbjct: 121 ttggcttctctttgtaaaacccccgtga 148



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

                               
Query: 111 gccaacagagctctgttggc 130
           ||||||||||||||||||||
Sbjct: 125 gccaacagagctctgttggc 106


>mdm-MIR394b_MI0023083_238
          Length = 238

 Score =  111 bits (56), Expect = 6e-26
 Identities = 144/176 (81%), Gaps = 23/176 (13%)
 Strand = Plus / Plus

                                                                       
Query: 1   gatgatcacgtgggttttgcaaagagtttcttacagagttctttggcattctgtccacct 60
           ||||||||||||||||| |||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29  gatgatcacgtgggtttcgcaaagcgtttcttacagagttctttggcattctgtccacct 88

                                                                       
Query: 61  c-------------------ccccctctct--ctgtgt--gtctgtggctcaatggatgg 97
           |                   | ||||||||  ||||||  || ||||| | |||||||||
Sbjct: 89  cctctttcttcgatctctttctccctctcttgctgtgtatgtatgtggtttaatggatgg 148

                                                                   
Query: 98  aggtgggcatactgccaacagagctctgttggcttctctttgtaaaacccccgtga 153
           ||||||||||||||||||||||| |||||||| ||||||||||||||||| |||||
Sbjct: 149 aggtgggcatactgccaacagagttctgttggattctctttgtaaaaccctcgtga 204


>ptc-MIR394a_MI0002313_Populus_trichocarpa_miR394a_stem-loop_147
          Length = 147

 Score = 89.7 bits (45), Expect = 2e-19
 Identities = 51/53 (96%)
 Strand = Plus / Plus

                                                               
Query: 10 gtgggttttgcaaagagtttcttacagagttctttggcattctgtccacctcc 62
          ||||||||||||||| ||||||||||||||| |||||||||||||||||||||
Sbjct: 5  gtgggttttgcaaagggtttcttacagagttttttggcattctgtccacctcc 57



 Score = 85.7 bits (43), Expect = 4e-18
 Identities = 55/59 (93%)
 Strand = Plus / Plus

                                                                      
Query: 95  tggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaacccccgtga 153
           |||||||||||||||||||||| ||||||||||||  |||||||||||||||| |||||
Sbjct: 89  tggaggtgggcatactgccaactgagctctgttggtctctctttgtaaaaccctcgtga 147


>ptc-MIR394b_MI0002314_Populus_trichocarpa_miR394b_stem-loop_147
          Length = 147

 Score = 87.7 bits (44), Expect = 9e-19
 Identities = 56/60 (93%)
 Strand = Plus / Plus

                                                                       
Query: 94  atggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaacccccgtga 153
           ||||||||||||||||||||||| ||||||||||||  |||||||||||||||| |||||
Sbjct: 88  atggaggtgggcatactgccaaccgagctctgttggtctctctttgtaaaaccctcgtga 147



 Score = 65.9 bits (33), Expect = 3e-12
 Identities = 48/53 (90%)
 Strand = Plus / Plus

                                                               
Query: 10 gtgggttttgcaaagagtttcttacagagttctttggcattctgtccacctcc 62
          |||| ||| |||||| |||||||||||||||  ||||||||||||||||||||
Sbjct: 5  gtggatttagcaaagggtttcttacagagtttattggcattctgtccacctcc 57


>ghr-MIR394a_MI0013543_Gossypium_hirsutum_miR394a_stem-loop_167
          Length = 167

 Score = 85.7 bits (43), Expect = 4e-18
 Identities = 49/51 (96%)
 Strand = Plus / Plus

                                                              
Query: 94  atggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaa 144
           ||||||||||||||||||||||| | |||||||||||||||||||||||||
Sbjct: 104 atggaggtgggcatactgccaactgtgctctgttggcttctctttgtaaaa 154



 Score = 65.9 bits (33), Expect = 3e-12
 Identities = 48/53 (90%)
 Strand = Plus / Plus

                                                               
Query: 12 gggttttgcaaagagtttcttacagagttctttggcattctgtccacctcccc 64
          |||||| |||||| | |||||||||||||  ||||||||||||||||||||||
Sbjct: 12 gggtttagcaaagggcttcttacagagtttattggcattctgtccacctcccc 64


>csi-MIR394_MI0016704_Citrus_sinensis_miR394_stem-loop_147
          Length = 147

 Score = 79.8 bits (40), Expect = 2e-16
 Identities = 43/44 (97%)
 Strand = Plus / Plus

                                                       
Query: 94  atggaggtgggcatactgccaacagagctctgttggcttctctt 137
           ||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 104 atggaggtgggcatactgccaactgagctctgttggcttctctt 147



 Score = 54.0 bits (27), Expect = 1e-08
 Identities = 33/35 (94%)
 Strand = Plus / Plus

                                             
Query: 28 ttcttacagagttctttggcattctgtccacctcc 62
          |||||||||||||  ||||||||||||||||||||
Sbjct: 2  ttcttacagagtttattggcattctgtccacctcc 36


>tcc-MIR394a_MI0017507_Theobroma_cacao_miR394a_stem-loop_120
          Length = 120

 Score = 71.9 bits (36), Expect = 5e-14
 Identities = 42/44 (95%)
 Strand = Plus / Plus

                                                       
Query: 94  atggaggtgggcatactgccaacagagctctgttggcttctctt 137
           ||||||||||||||||||||||| | ||||||||||||||||||
Sbjct: 77  atggaggtgggcatactgccaactgggctctgttggcttctctt 120



 Score = 56.0 bits (28), Expect = 3e-09
 Identities = 34/36 (94%)
 Strand = Plus / Plus

                                              
Query: 28 ttcttacagagttctttggcattctgtccacctccc 63
          |||||||||||||  |||||||||||||||||||||
Sbjct: 6  ttcttacagagtttattggcattctgtccacctccc 41


>aly-MIR394a_MI0014574_Arabidopsis_lyrata_miR394a_stem-loop_220
          Length = 220

 Score = 69.9 bits (35), Expect = 2e-13
 Identities = 41/43 (95%)
 Strand = Plus / Plus

                                                     
Query: 20 caaagagtttcttacagagttctttggcattctgtccacctcc 62
          ||||||||||||||||||  |||||||||||||||||||||||
Sbjct: 45 caaagagtttcttacagacatctttggcattctgtccacctcc 87


>aly-MIR394b_MI0014575_Arabidopsis_lyrata_miR394b_stem-loop_160
          Length = 160

 Score = 67.9 bits (34), Expect = 9e-13
 Identities = 40/42 (95%)
 Strand = Plus / Plus

                                                    
Query: 21 aaagagtttcttacagagttctttggcattctgtccacctcc 62
          ||||||| |||||||||| |||||||||||||||||||||||
Sbjct: 19 aaagagtctcttacagagatctttggcattctgtccacctcc 60



 Score = 50.1 bits (25), Expect = 2e-07
 Identities = 46/53 (86%)
 Strand = Plus / Plus

                                                                
Query: 96  ggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaacccc 148
           |||||||| |||| ||||||||||| |||||| |  | |||||||||||||||
Sbjct: 100 ggaggtggacatattgccaacagagatctgttagggtttctttgtaaaacccc 152


>gma-MIR394a_MI0016582_Glycine_max_miR394a_stem-loop_157
          Length = 157

 Score = 67.9 bits (34), Expect = 9e-13
 Identities = 46/50 (92%)
 Strand = Plus / Plus

                                                             
Query: 94  atggaggtgggcatactgccaacagagctctgttggcttctctttgtaaa 143
           |||||||||||||||||| |||| |||||||||||||| | |||||||||
Sbjct: 97  atggaggtgggcatactgtcaactgagctctgttggctacactttgtaaa 146



 Score = 54.0 bits (27), Expect = 1e-08
 Identities = 45/51 (88%)
 Strand = Plus / Plus

                                                             
Query: 12 gggttttgcaaagagtttcttacagagttctttggcattctgtccacctcc 62
          |||||| |||||| ||| || ||||||||  ||||||||||||||||||||
Sbjct: 8  gggtttagcaaagtgttgctaacagagtttattggcattctgtccacctcc 58


>bdi-MIR394_MI0018115_Brachypodium_distachyon_miR394_stem-loop_200
          Length = 200

 Score = 65.9 bits (33), Expect = 3e-12
 Identities = 48/53 (90%)
 Strand = Plus / Plus

                                                                
Query: 95  tggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaaccc 147
           |||||||||||||||||||||  ||||| ||| |||||| |||||||||||||
Sbjct: 125 tggaggtgggcatactgccaatggagctgtgtaggcttccctttgtaaaaccc 177



 Score = 48.1 bits (24), Expect = 8e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 35 agagttctttggcattctgtccacctcc 62
          |||| |||||||||||||||||||||||
Sbjct: 45 agagctctttggcattctgtccacctcc 72


>ath-MIR394b_MI0001006_Arabidopsis_thaliana_miR394b_stem-loop_121
          Length = 121

 Score = 58.0 bits (29), Expect = 8e-10
 Identities = 32/33 (96%)
 Strand = Plus / Plus

                                           
Query: 30 cttacagagttctttggcattctgtccacctcc 62
          ||||||||| |||||||||||||||||||||||
Sbjct: 1  cttacagagatctttggcattctgtccacctcc 33



 Score = 48.1 bits (24), Expect = 8e-07
 Identities = 30/32 (93%)
 Strand = Plus / Plus

                                           
Query: 96  ggaggtgggcatactgccaacagagctctgtt 127
           |||||||||||||||||||| |||| ||||||
Sbjct: 88  ggaggtgggcatactgccaatagagatctgtt 119


>osa-MIR394_MI0001027_Oryza_sativa_miR394_stem-loop_110
          Length = 110

 Score = 56.0 bits (28), Expect = 3e-09
 Identities = 28/28 (100%)
 Strand = Plus / Plus

                                      
Query: 35 agagttctttggcattctgtccacctcc 62
          ||||||||||||||||||||||||||||
Sbjct: 6  agagttctttggcattctgtccacctcc 33



 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 95  tggaggtgggcatactgccaa 115
           |||||||||||||||||||||
Sbjct: 76  tggaggtgggcatactgccaa 96


>zma-MIR394b_MI0001795_Zea_mays_miR394b_stem-loop_122
          Length = 122

 Score = 50.1 bits (25), Expect = 2e-07
 Identities = 28/29 (96%)
 Strand = Plus / Plus

                                       
Query: 35 agagttctttggcattctgtccacctccc 63
          ||||||| |||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctccc 41



 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 95  tggaggtgggcatactgccaa 115
           |||||||||||||||||||||
Sbjct: 83  tggaggtgggcatactgccaa 103


>vvi-MIR394b_MI0006555_Vitis_vinifera_miR394b_stem-loop_93
          Length = 93

 Score = 50.1 bits (25), Expect = 2e-07
 Identities = 31/33 (93%)
 Strand = Plus / Plus

                                            
Query: 95  tggaggtgggcatactgccaacagagctctgtt 127
           ||||||||||||||||||||||  |||||||||
Sbjct: 61  tggaggtgggcatactgccaaccaagctctgtt 93



 Score = 46.1 bits (23), Expect = 3e-06
 Identities = 29/31 (93%)
 Strand = Plus / Plus

                                         
Query: 33 acagagttctttggcattctgtccacctccc 63
          ||||||||  |||||||||||||||||||||
Sbjct: 1  acagagtttattggcattctgtccacctccc 31


>zma-MIR394a_MI0001794_Zea_mays_miR394a_stem-loop_126
          Length = 126

 Score = 48.1 bits (24), Expect = 8e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 35 agagttctttggcattctgtccacctcc 62
          ||||||| ||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctcc 40



 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 95  tggaggtgggcatactgccaa 115
           |||||||||||||||||||||
Sbjct: 87  tggaggtgggcatactgccaa 107


>sbi-MIR394a_MI0001531_Sorghum_bicolor_miR394a_stem-loop_110
          Length = 110

 Score = 48.1 bits (24), Expect = 8e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 35 agagttctttggcattctgtccacctcc 62
          ||||||| ||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctcc 40


>ath-MIR394a_MI0001005_Arabidopsis_thaliana_miR394a_stem-loop_117
          Length = 117

 Score = 46.1 bits (23), Expect = 3e-06
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                 
Query: 40 tctttggcattctgtccacctcc 62
          |||||||||||||||||||||||
Sbjct: 11 tctttggcattctgtccacctcc 33


>gma-MIR394b_MI0016577_Glycine_max_miR394b_stem-loop_104
          Length = 104

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

                                        
Query: 33 acagagttctttggcattctgtccacctcc 62
          ||||||||  ||||||||||||||||||||
Sbjct: 3  acagagtttattggcattctgtccacctcc 32



 Score = 44.1 bits (22), Expect = 1e-05
 Identities = 31/34 (91%)
 Strand = Plus / Plus

                                             
Query: 95  tggaggtgggcatactgccaacagagctctgttg 128
           ||||||||||||||||| |||| ||| |||||||
Sbjct: 71  tggaggtgggcatactgtcaactgagttctgttg 104


>sbi-MIR394b_MI0010889_Sorghum_bicolor_miR394b_stem-loop_77
          Length = 77

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 95  tggaggtgggcatactgccaa 115
           |||||||||||||||||||||
Sbjct: 53  tggaggtgggcatactgccaa 73



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

                              
Query: 43 ttggcattctgtccacctcc 62
          ||||||||||||||||||||
Sbjct: 2  ttggcattctgtccacctcc 21


>vvi-MIR394a_MI0006554_Vitis_vinifera_miR394a_stem-loop_89
          Length = 89

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 42 tttggcattctgtccacctcc 62
          |||||||||||||||||||||
Sbjct: 10 tttggcattctgtccacctcc 30


>vvi-MIR394c_MI0007953_Vitis_vinifera_miR394c_stem-loop_102
          Length = 102

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 42 tttggcattctgtccacctcc 62
          |||||||||||||||||||||
Sbjct: 10 tttggcattctgtccacctcc 30


>tcc-MIR394b_MI0017508_Theobroma_cacao_miR394b_stem-loop_125
          Length = 125

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 42 tttggcattctgtccacctcc 62
          |||||||||||||||||||||
Sbjct: 20 tttggcattctgtccacctcc 40


>gma-MIR394c_MI0017846_Glycine_max_miR394c_stem-loop_110
          Length = 110

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                       
Query: 34 cagagttctttggcattctgtccacctcc 62
          |||||||  ||||||||||||||||||||
Sbjct: 1  cagagtttcttggcattctgtccacctcc 29


>ghr-MIR394b_MI0013542_Gossypium_hirsutum_miR394b_stem-loop_165
          Length = 165

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 42 tttggcattctgtccacctcc 62
          |||||||||||||||||||||
Sbjct: 34 tttggcattctgtccacctcc 54


>ahy-MIR394_MI0015338_Arachis_hypogaea_miR394_stem-loop_96
          Length = 96

 Score = 42.1 bits (21), Expect = 5e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 42 tttggcattctgtccacctcc 62
          |||||||||||||||||||||
Sbjct: 21 tttggcattctgtccacctcc 41


>ssl-MIR394_MI0019349_Salvia_sclarea_miR394_stem-loop_141
          Length = 141

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

                              
Query: 43 ttggcattctgtccacctcc 62
          ||||||||||||||||||||
Sbjct: 1  ttggcattctgtccacctcc 20



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

                               
Query: 96  ggaggtgggcatactgccaa 115
           ||||||||||||||||||||
Sbjct: 122 ggaggtgggcatactgccaa 141


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.