(200 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR394b_MI0023083_238                                             396   e-111
mdm-MIR394a_MI0023082_148                                             105   5e-24
ptc-MIR394b_MI0002314_Populus_trichocarpa_miR394b_stem-loop_147        88   1e-18
ptc-MIR394a_MI0002313_Populus_trichocarpa_miR394a_stem-loop_147        86   5e-18
ghr-MIR394a_MI0013543_Gossypium_hirsutum_miR394a_stem-loop_167         72   7e-14
aly-MIR394a_MI0014574_Arabidopsis_lyrata_miR394a_stem-loop_220         66   4e-12
aly-MIR394b_MI0014575_Arabidopsis_lyrata_miR394b_stem-loop_160         66   4e-12
ath-MIR394b_MI0001006_Arabidopsis_thaliana_miR394b_stem-loop_121       64   2e-11
csi-MIR394_MI0016704_Citrus_sinensis_miR394_stem-loop_147              64   2e-11
osa-MIR394_MI0001027_Oryza_sativa_miR394_stem-loop_110                 58   1e-09
tcc-MIR394a_MI0017507_Theobroma_cacao_miR394a_stem-loop_120            56   4e-09
zma-MIR394a_MI0001794_Zea_mays_miR394a_stem-loop_126                   54   2e-08
gma-MIR394a_MI0016582_Glycine_max_miR394a_stem-loop_157                54   2e-08
gma-MIR394b_MI0016577_Glycine_max_miR394b_stem-loop_104                52   7e-08
sbi-MIR394a_MI0001531_Sorghum_bicolor_miR394a_stem-loop_110            50   3e-07
bdi-MIR394_MI0018115_Brachypodium_distachyon_miR394_stem-loop_200      50   3e-07
zma-MIR394b_MI0001795_Zea_mays_miR394b_stem-loop_122                   48   1e-06
ath-MIR394a_MI0001005_Arabidopsis_thaliana_miR394a_stem-loop_117       48   1e-06
vvi-MIR394b_MI0006555_Vitis_vinifera_miR394b_stem-loop_93              44   2e-05
sbi-MIR394b_MI0010889_Sorghum_bicolor_miR394b_stem-loop_77             42   6e-05
vvi-MIR394a_MI0006554_Vitis_vinifera_miR394a_stem-loop_89              42   6e-05
ssl-MIR394_MI0019349_Salvia_sclarea_miR394_stem-loop_141               42   6e-05
vvi-MIR394c_MI0007953_Vitis_vinifera_miR394c_stem-loop_102             42   6e-05
tcc-MIR394b_MI0017508_Theobroma_cacao_miR394b_stem-loop_125            42   6e-05
gma-MIR394c_MI0017846_Glycine_max_miR394c_stem-loop_110                42   6e-05
ghr-MIR394b_MI0013542_Gossypium_hirsutum_miR394b_stem-loop_165         42   6e-05
ahy-MIR394_MI0015338_Arachis_hypogaea_miR394_stem-loop_96              42   6e-05

>mdm-MIR394b_MI0023083_238
          Length = 238

 Score =  396 bits (200), Expect = e-111
 Identities = 200/200 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgtaaacgtggatgatcacgtgggtttcgcaaagcgtttcttacagagttctttggcatt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 19  tgtaaacgtggatgatcacgtgggtttcgcaaagcgtttcttacagagttctttggcatt 78

                                                                       
Query: 61  ctgtccacctcctctttcttcgatctctttctccctctcttgctgtgtatgtatgtggtt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 79  ctgtccacctcctctttcttcgatctctttctccctctcttgctgtgtatgtatgtggtt 138

                                                                       
Query: 121 taatggatggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 139 taatggatggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccc 198

                               
Query: 181 tcgtgagtgtatatatgtat 200
           ||||||||||||||||||||
Sbjct: 199 tcgtgagtgtatatatgtat 218


>mdm-MIR394a_MI0023082_148
          Length = 148

 Score =  105 bits (53), Expect = 5e-24
 Identities = 62/65 (95%)
 Strand = Plus / Plus

                                                                       
Query: 122 aatggatggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccct 181
           |||||||||||||||||||||||||||||||| |||||||| ||||||||||||||||| 
Sbjct: 84  aatggatggaggtgggcatactgccaacagagctctgttggcttctctttgtaaaacccc 143

                
Query: 182 cgtga 186
           |||||
Sbjct: 144 cgtga 148



 Score = 97.6 bits (49), Expect = 1e-21
 Identities = 55/57 (96%)
 Strand = Plus / Plus

                                                                   
Query: 16 tcacgtgggtttcgcaaagcgtttcttacagagttctttggcattctgtccacctcc 72
          |||||||||||| |||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 1  tcacgtgggttttgcaaagagtttcttacagagttctttggcattctgtccacctcc 57


>ptc-MIR394b_MI0002314_Populus_trichocarpa_miR394b_stem-loop_147
          Length = 147

 Score = 87.7 bits (44), Expect = 1e-18
 Identities = 56/60 (93%)
 Strand = Plus / Plus

                                                                       
Query: 127 atggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccctcgtga 186
           ||||||||||||||||||||||| ||| ||||||||  ||||||||||||||||||||||
Sbjct: 88  atggaggtgggcatactgccaaccgagctctgttggtctctctttgtaaaaccctcgtga 147



 Score = 67.9 bits (34), Expect = 1e-12
 Identities = 49/54 (90%)
 Strand = Plus / Plus

                                                                
Query: 20 gtgggtttcgcaaagcgtttcttacagagttctttggcattctgtccacctcct 73
          |||| ||| |||||| |||||||||||||||  |||||||||||||||||||||
Sbjct: 5  gtggatttagcaaagggtttcttacagagtttattggcattctgtccacctcct 58


>ptc-MIR394a_MI0002313_Populus_trichocarpa_miR394a_stem-loop_147
          Length = 147

 Score = 85.7 bits (43), Expect = 5e-18
 Identities = 55/59 (93%)
 Strand = Plus / Plus

                                                                      
Query: 128 tggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccctcgtga 186
           |||||||||||||||||||||| ||| ||||||||  ||||||||||||||||||||||
Sbjct: 89  tggaggtgggcatactgccaactgagctctgttggtctctctttgtaaaaccctcgtga 147



 Score = 81.8 bits (41), Expect = 7e-17
 Identities = 50/53 (94%)
 Strand = Plus / Plus

                                                               
Query: 20 gtgggtttcgcaaagcgtttcttacagagttctttggcattctgtccacctcc 72
          |||||||| |||||| ||||||||||||||| |||||||||||||||||||||
Sbjct: 5  gtgggttttgcaaagggtttcttacagagttttttggcattctgtccacctcc 57


>ghr-MIR394a_MI0013543_Gossypium_hirsutum_miR394a_stem-loop_167
          Length = 167

 Score = 71.9 bits (36), Expect = 7e-14
 Identities = 54/60 (90%)
 Strand = Plus / Plus

                                                                       
Query: 127 atggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccctcgtga 186
           ||||||||||||||||||||||| | | |||||||| |||||||||||||| ||| ||||
Sbjct: 104 atggaggtgggcatactgccaactgtgctctgttggcttctctttgtaaaatccttgtga 163



 Score = 61.9 bits (31), Expect = 7e-11
 Identities = 46/51 (90%)
 Strand = Plus / Plus

                                                             
Query: 22 gggtttcgcaaagcgtttcttacagagttctttggcattctgtccacctcc 72
          |||||| |||||| | |||||||||||||  ||||||||||||||||||||
Sbjct: 12 gggtttagcaaagggcttcttacagagtttattggcattctgtccacctcc 62


>aly-MIR394a_MI0014574_Arabidopsis_lyrata_miR394a_stem-loop_220
          Length = 220

 Score = 65.9 bits (33), Expect = 4e-12
 Identities = 42/45 (93%)
 Strand = Plus / Plus

                                                       
Query: 30 caaagcgtttcttacagagttctttggcattctgtccacctcctc 74
          ||||| ||||||||||||  |||||||||||||||||||||||||
Sbjct: 45 caaagagtttcttacagacatctttggcattctgtccacctcctc 89



 Score = 44.1 bits (22), Expect = 2e-05
 Identities = 46/54 (85%)
 Strand = Plus / Plus

                                                                 
Query: 129 ggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccctc 182
           ||||||||| |||||||||| |||| |||||| |  | |||| |||||||||||
Sbjct: 130 ggaggtgggtatactgccaatagagatctgttagggtttcttcgtaaaaccctc 183


>aly-MIR394b_MI0014575_Arabidopsis_lyrata_miR394b_stem-loop_160
          Length = 160

 Score = 65.9 bits (33), Expect = 4e-12
 Identities = 36/37 (97%)
 Strand = Plus / Plus

                                               
Query: 39 tcttacagagttctttggcattctgtccacctcctct 75
          |||||||||| ||||||||||||||||||||||||||
Sbjct: 27 tcttacagagatctttggcattctgtccacctcctct 63



 Score = 48.1 bits (24), Expect = 1e-06
 Identities = 45/52 (86%)
 Strand = Plus / Plus

                                                               
Query: 129 ggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccc 180
           |||||||| |||| ||||||||||| |||||| |  | ||||||||||||||
Sbjct: 100 ggaggtggacatattgccaacagagatctgttagggtttctttgtaaaaccc 151


>ath-MIR394b_MI0001006_Arabidopsis_thaliana_miR394b_stem-loop_121
          Length = 121

 Score = 63.9 bits (32), Expect = 2e-11
 Identities = 35/36 (97%)
 Strand = Plus / Plus

                                              
Query: 40 cttacagagttctttggcattctgtccacctcctct 75
          ||||||||| ||||||||||||||||||||||||||
Sbjct: 1  cttacagagatctttggcattctgtccacctcctct 36



 Score = 48.1 bits (24), Expect = 1e-06
 Identities = 30/32 (93%)
 Strand = Plus / Plus

                                           
Query: 129 ggaggtgggcatactgccaacagagttctgtt 160
           |||||||||||||||||||| |||| ||||||
Sbjct: 88  ggaggtgggcatactgccaatagagatctgtt 119


>csi-MIR394_MI0016704_Citrus_sinensis_miR394_stem-loop_147
          Length = 147

 Score = 63.9 bits (32), Expect = 2e-11
 Identities = 41/44 (93%)
 Strand = Plus / Plus

                                                       
Query: 127 atggaggtgggcatactgccaacagagttctgttggattctctt 170
           ||||||||||||||||||||||| ||| |||||||| |||||||
Sbjct: 104 atggaggtgggcatactgccaactgagctctgttggcttctctt 147



 Score = 54.0 bits (27), Expect = 2e-08
 Identities = 33/35 (94%)
 Strand = Plus / Plus

                                             
Query: 38 ttcttacagagttctttggcattctgtccacctcc 72
          |||||||||||||  ||||||||||||||||||||
Sbjct: 2  ttcttacagagtttattggcattctgtccacctcc 36


>osa-MIR394_MI0001027_Oryza_sativa_miR394_stem-loop_110
          Length = 110

 Score = 58.0 bits (29), Expect = 1e-09
 Identities = 29/29 (100%)
 Strand = Plus / Plus

                                       
Query: 45 agagttctttggcattctgtccacctcct 73
          |||||||||||||||||||||||||||||
Sbjct: 6  agagttctttggcattctgtccacctcct 34



 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 128 tggaggtgggcatactgccaa 148
           |||||||||||||||||||||
Sbjct: 76  tggaggtgggcatactgccaa 96


>tcc-MIR394a_MI0017507_Theobroma_cacao_miR394a_stem-loop_120
          Length = 120

 Score = 56.0 bits (28), Expect = 4e-09
 Identities = 40/44 (90%)
 Strand = Plus / Plus

                                                       
Query: 127 atggaggtgggcatactgccaacagagttctgttggattctctt 170
           ||||||||||||||||||||||| | | |||||||| |||||||
Sbjct: 77  atggaggtgggcatactgccaactgggctctgttggcttctctt 120



 Score = 54.0 bits (27), Expect = 2e-08
 Identities = 33/35 (94%)
 Strand = Plus / Plus

                                             
Query: 38 ttcttacagagttctttggcattctgtccacctcc 72
          |||||||||||||  ||||||||||||||||||||
Sbjct: 6  ttcttacagagtttattggcattctgtccacctcc 40


>zma-MIR394a_MI0001794_Zea_mays_miR394a_stem-loop_126
          Length = 126

 Score = 54.0 bits (27), Expect = 2e-08
 Identities = 30/31 (96%)
 Strand = Plus / Plus

                                         
Query: 45 agagttctttggcattctgtccacctcctct 75
          ||||||| |||||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctcctct 43



 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 128 tggaggtgggcatactgccaa 148
           |||||||||||||||||||||
Sbjct: 87  tggaggtgggcatactgccaa 107


>gma-MIR394a_MI0016582_Glycine_max_miR394a_stem-loop_157
          Length = 157

 Score = 54.0 bits (27), Expect = 2e-08
 Identities = 45/51 (88%)
 Strand = Plus / Plus

                                                             
Query: 22 gggtttcgcaaagcgtttcttacagagttctttggcattctgtccacctcc 72
          |||||| |||||| ||| || ||||||||  ||||||||||||||||||||
Sbjct: 8  gggtttagcaaagtgttgctaacagagtttattggcattctgtccacctcc 58



 Score = 52.0 bits (26), Expect = 7e-08
 Identities = 44/50 (88%)
 Strand = Plus / Plus

                                                             
Query: 127 atggaggtgggcatactgccaacagagttctgttggattctctttgtaaa 176
           |||||||||||||||||| |||| ||| |||||||| | | |||||||||
Sbjct: 97  atggaggtgggcatactgtcaactgagctctgttggctacactttgtaaa 146


>gma-MIR394b_MI0016577_Glycine_max_miR394b_stem-loop_104
          Length = 104

 Score = 52.0 bits (26), Expect = 7e-08
 Identities = 32/34 (94%)
 Strand = Plus / Plus

                                             
Query: 128 tggaggtgggcatactgccaacagagttctgttg 161
           ||||||||||||||||| |||| |||||||||||
Sbjct: 71  tggaggtgggcatactgtcaactgagttctgttg 104



 Score = 44.1 bits (22), Expect = 2e-05
 Identities = 28/30 (93%)
 Strand = Plus / Plus

                                        
Query: 43 acagagttctttggcattctgtccacctcc 72
          ||||||||  ||||||||||||||||||||
Sbjct: 3  acagagtttattggcattctgtccacctcc 32


>sbi-MIR394a_MI0001531_Sorghum_bicolor_miR394a_stem-loop_110
          Length = 110

 Score = 50.1 bits (25), Expect = 3e-07
 Identities = 28/29 (96%)
 Strand = Plus / Plus

                                       
Query: 45 agagttctttggcattctgtccacctcct 73
          ||||||| |||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctcct 41


>bdi-MIR394_MI0018115_Brachypodium_distachyon_miR394_stem-loop_200
          Length = 200

 Score = 50.1 bits (25), Expect = 3e-07
 Identities = 28/29 (96%)
 Strand = Plus / Plus

                                       
Query: 45 agagttctttggcattctgtccacctcct 73
          |||| ||||||||||||||||||||||||
Sbjct: 45 agagctctttggcattctgtccacctcct 73



 Score = 50.1 bits (25), Expect = 3e-07
 Identities = 46/53 (86%)
 Strand = Plus / Plus

                                                                
Query: 128 tggaggtgggcatactgccaacagagttctgttggattctctttgtaaaaccc 180
           |||||||||||||||||||||  ||| | ||| || ||| |||||||||||||
Sbjct: 125 tggaggtgggcatactgccaatggagctgtgtaggcttccctttgtaaaaccc 177


>zma-MIR394b_MI0001795_Zea_mays_miR394b_stem-loop_122
          Length = 122

 Score = 48.1 bits (24), Expect = 1e-06
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 45 agagttctttggcattctgtccacctcc 72
          ||||||| ||||||||||||||||||||
Sbjct: 13 agagttccttggcattctgtccacctcc 40



 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 128 tggaggtgggcatactgccaa 148
           |||||||||||||||||||||
Sbjct: 83  tggaggtgggcatactgccaa 103


>ath-MIR394a_MI0001005_Arabidopsis_thaliana_miR394a_stem-loop_117
          Length = 117

 Score = 48.1 bits (24), Expect = 1e-06
 Identities = 24/24 (100%)
 Strand = Plus / Plus

                                  
Query: 50 tctttggcattctgtccacctcct 73
          ||||||||||||||||||||||||
Sbjct: 11 tctttggcattctgtccacctcct 34


>vvi-MIR394b_MI0006555_Vitis_vinifera_miR394b_stem-loop_93
          Length = 93

 Score = 44.1 bits (22), Expect = 2e-05
 Identities = 28/30 (93%)
 Strand = Plus / Plus

                                        
Query: 43 acagagttctttggcattctgtccacctcc 72
          ||||||||  ||||||||||||||||||||
Sbjct: 1  acagagtttattggcattctgtccacctcc 30



 Score = 44.1 bits (22), Expect = 2e-05
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 128 tggaggtgggcatactgccaac 149
           ||||||||||||||||||||||
Sbjct: 61  tggaggtgggcatactgccaac 82


>sbi-MIR394b_MI0010889_Sorghum_bicolor_miR394b_stem-loop_77
          Length = 77

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 53 ttggcattctgtccacctcct 73
          |||||||||||||||||||||
Sbjct: 2  ttggcattctgtccacctcct 22



 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 128 tggaggtgggcatactgccaa 148
           |||||||||||||||||||||
Sbjct: 53  tggaggtgggcatactgccaa 73


>vvi-MIR394a_MI0006554_Vitis_vinifera_miR394a_stem-loop_89
          Length = 89

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 52 tttggcattctgtccacctcc 72
          |||||||||||||||||||||
Sbjct: 10 tttggcattctgtccacctcc 30


>ssl-MIR394_MI0019349_Salvia_sclarea_miR394_stem-loop_141
          Length = 141

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 53 ttggcattctgtccacctcct 73
          |||||||||||||||||||||
Sbjct: 1  ttggcattctgtccacctcct 21



 Score = 40.1 bits (20), Expect = 3e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 129 ggaggtgggcatactgccaa 148
           ||||||||||||||||||||
Sbjct: 122 ggaggtgggcatactgccaa 141


>vvi-MIR394c_MI0007953_Vitis_vinifera_miR394c_stem-loop_102
          Length = 102

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 52 tttggcattctgtccacctcc 72
          |||||||||||||||||||||
Sbjct: 10 tttggcattctgtccacctcc 30


>tcc-MIR394b_MI0017508_Theobroma_cacao_miR394b_stem-loop_125
          Length = 125

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 52 tttggcattctgtccacctcc 72
          |||||||||||||||||||||
Sbjct: 20 tttggcattctgtccacctcc 40


>gma-MIR394c_MI0017846_Glycine_max_miR394c_stem-loop_110
          Length = 110

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                       
Query: 44 cagagttctttggcattctgtccacctcc 72
          |||||||  ||||||||||||||||||||
Sbjct: 1  cagagtttcttggcattctgtccacctcc 29


>ghr-MIR394b_MI0013542_Gossypium_hirsutum_miR394b_stem-loop_165
          Length = 165

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 52 tttggcattctgtccacctcc 72
          |||||||||||||||||||||
Sbjct: 34 tttggcattctgtccacctcc 54


>ahy-MIR394_MI0015338_Arachis_hypogaea_miR394_stem-loop_96
          Length = 96

 Score = 42.1 bits (21), Expect = 6e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 52 tttggcattctgtccacctcc 72
          |||||||||||||||||||||
Sbjct: 21 tttggcattctgtccacctcc 41


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.