(162 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR393a_MI0023079_119                                             236   2e-63
mdm-MIR393f_MI0023167_119                                             236   2e-63
mdm-MIR393d_MI0023165_131                                             109   3e-25
mdm-MIR393c_MI0023081_131                                             109   3e-25
mdm-MIR393b_MI0023080_131                                             109   3e-25
mdm-MIR393e_MI0023166_131                                             109   3e-25
tcc-MIR393b_MI0017506_Theobroma_cacao_miR393b_stem-loop_158            52   5e-08
ptc-MIR393d_MI0002312_Populus_trichocarpa_miR393d_stem-loop_107        52   5e-08
ptc-MIR393c_MI0002311_Populus_trichocarpa_miR393c_stem-loop_107        52   5e-08
rco-MIR393_MI0013412_Ricinus_communis_miR393_stem-loop_108             52   5e-08
zma-MIR393a_MI0001845_Zea_mays_miR393a_stem-loop_126                   50   2e-07
ghr-MIR393_MI0013541_Gossypium_hirsutum_miR393_stem-loop_139           50   2e-07
ptc-MIR393b_MI0002310_Populus_trichocarpa_miR393b_stem-loop_84         48   8e-07
ptc-MIR393a_MI0002309_Populus_trichocarpa_miR393a_stem-loop_85         48   8e-07
vvi-MIR393b_MI0006553_Vitis_vinifera_miR393b_stem-loop_83              48   8e-07
zma-MIR393c_MI0013211_Zea_mays_miR393c_stem-loop_97                    48   8e-07
mtr-MIR393_MI0001745_Medicago_truncatula_miR393_stem-loop_135          48   8e-07
tcc-MIR393a_MI0017505_Theobroma_cacao_miR393a_stem-loop_118            48   8e-07
gma-MIR393_MI0007216_Glycine_max_miR393_stem-loop_120                  48   8e-07
bdi-MIR393b_MI0018123_Brachypodium_distachyon_miR393b_stem-loop_174    46   3e-06
osa-MIR393b_MI0001148_Oryza_sativa_miR393b_stem-loop_132               46   3e-06
vvi-MIR393a_MI0007952_Vitis_vinifera_miR393a_stem-loop_126             44   1e-05
mtr-MIR393b_MI0005601_Medicago_truncatula_miR393b_stem-loop_119        44   1e-05
sbi-MIR393b_MI0010888_Sorghum_bicolor_miR393b_stem-loop_84             44   1e-05
aly-MIR393b_MI0014573_Arabidopsis_lyrata_miR393b_stem-loop_169         42   5e-05
bna-MIR393_MI0005772_Brassica_napus_miR393_stem-loop_127               42   5e-05
bdi-MIR393a_MI0018119_Brachypodium_distachyon_miR393a_stem-loop_159    42   5e-05
osa-MIR393_MI0001026_Oryza_sativa_miR393_stem-loop_115                 42   5e-05
ath-MIR393a_MI0001003_Arabidopsis_thaliana_miR393a_stem-loop_133       42   5e-05
aly-MIR393a_MI0014572_Arabidopsis_lyrata_miR393a_stem-loop_147         42   5e-05
zma-MIR393b_MI0013210_Zea_mays_miR393b_stem-loop_108                   42   5e-05
sbi-MIR393_MI0001530_Sorghum_bicolor_miR393_stem-loop_139              42   5e-05
csi-MIR393_MI0016703_Citrus_sinensis_miR393_stem-loop_145              42   5e-05
ath-MIR393b_MI0001004_Arabidopsis_thaliana_miR393b_stem-loop_160       42   5e-05

>mdm-MIR393a_MI0023079_119
          Length = 119

 Score =  236 bits (119), Expect = 2e-63
 Identities = 119/119 (100%)
 Strand = Plus / Plus

                                                                       
Query: 23  gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 82
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 60

                                                                      
Query: 83  tacagacatggcaggttatatatgtagttggatcatgcgatcccttcggacgtttccat 141
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tacagacatggcaggttatatatgtagttggatcatgcgatcccttcggacgtttccat 119


>mdm-MIR393f_MI0023167_119
          Length = 119

 Score =  236 bits (119), Expect = 2e-63
 Identities = 119/119 (100%)
 Strand = Plus / Plus

                                                                       
Query: 23  gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 82
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 60

                                                                      
Query: 83  tacagacatggcaggttatatatgtagttggatcatgcgatcccttcggacgtttccat 141
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tacagacatggcaggttatatatgtagttggatcatgcgatcccttcggacgtttccat 119


>mdm-MIR393d_MI0023165_131
          Length = 131

 Score =  109 bits (55), Expect = 3e-25
 Identities = 112/131 (85%), Gaps = 10/131 (7%)
 Strand = Plus / Plus

                                                                       
Query: 22  ggtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtcc 81
           ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 82  gtacagac--atggcaggtta--------tatatgtagttggatcatgcgatcccttcgg 131
           | | ||||  ||||  |||||        | | |||||| ||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

                      
Query: 132 acgtttccatc 142
           |||||||||||
Sbjct: 121 acgtttccatc 131


>mdm-MIR393c_MI0023081_131
          Length = 131

 Score =  109 bits (55), Expect = 3e-25
 Identities = 112/131 (85%), Gaps = 10/131 (7%)
 Strand = Plus / Plus

                                                                       
Query: 22  ggtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtcc 81
           ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 82  gtacagac--atggcaggtta--------tatatgtagttggatcatgcgatcccttcgg 131
           | | ||||  ||||  |||||        | | |||||| ||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

                      
Query: 132 acgtttccatc 142
           |||||||||||
Sbjct: 121 acgtttccatc 131


>mdm-MIR393b_MI0023080_131
          Length = 131

 Score =  109 bits (55), Expect = 3e-25
 Identities = 112/131 (85%), Gaps = 10/131 (7%)
 Strand = Plus / Plus

                                                                       
Query: 22  ggtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtcc 81
           ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 82  gtacagac--atggcaggtta--------tatatgtagttggatcatgcgatcccttcgg 131
           | | ||||  ||||  |||||        | | |||||| ||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

                      
Query: 132 acgtttccatc 142
           |||||||||||
Sbjct: 121 acgtttccatc 131


>mdm-MIR393e_MI0023166_131
          Length = 131

 Score =  109 bits (55), Expect = 3e-25
 Identities = 112/131 (85%), Gaps = 10/131 (7%)
 Strand = Plus / Plus

                                                                       
Query: 22  ggtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtcc 81
           ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 82  gtacagac--atggcaggtta--------tatatgtagttggatcatgcgatcccttcgg 131
           | | ||||  ||||  |||||        | | |||||| ||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

                      
Query: 132 acgtttccatc 142
           |||||||||||
Sbjct: 121 acgtttccatc 131


>tcc-MIR393b_MI0017506_Theobroma_cacao_miR393b_stem-loop_158
          Length = 158

 Score = 52.0 bits (26), Expect = 5e-08
 Identities = 35/38 (92%)
 Strand = Plus / Plus

                                                
Query: 19 gcaggtggaggcttccaaagggatcgcattgatctaat 56
          ||||||||||   |||||||||||||||||||||||||
Sbjct: 8  gcaggtggagagctccaaagggatcgcattgatctaat 45



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

                                             
Query: 110 ttggatcatgcgatcccttcggacgtttccatca 143
           ||||||||||| |||||||||||  |||||||||
Sbjct: 116 ttggatcatgcaatcccttcggaattttccatca 149


>ptc-MIR393d_MI0002312_Populus_trichocarpa_miR393d_stem-loop_107
          Length = 107

 Score = 52.0 bits (26), Expect = 5e-08
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                    
Query: 31 ttccaaagggatcgcattgatctaat 56
          ||||||||||||||||||||||||||
Sbjct: 10 ttccaaagggatcgcattgatctaat 35



 Score = 38.2 bits (19), Expect = 8e-04
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 110 ttggatcatgcgatccctt 128
           |||||||||||||||||||
Sbjct: 77  ttggatcatgcgatccctt 95


>ptc-MIR393c_MI0002311_Populus_trichocarpa_miR393c_stem-loop_107
          Length = 107

 Score = 52.0 bits (26), Expect = 5e-08
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                    
Query: 31 ttccaaagggatcgcattgatctaat 56
          ||||||||||||||||||||||||||
Sbjct: 10 ttccaaagggatcgcattgatctaat 35



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

                               
Query: 109 gttggatcatgcgatccctt 128
           ||||||||||||||||||||
Sbjct: 76  gttggatcatgcgatccctt 95


>rco-MIR393_MI0013412_Ricinus_communis_miR393_stem-loop_108
          Length = 108

 Score = 52.0 bits (26), Expect = 5e-08
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                    
Query: 31 ttccaaagggatcgcattgatctaat 56
          ||||||||||||||||||||||||||
Sbjct: 5  ttccaaagggatcgcattgatctaat 30



 Score = 38.2 bits (19), Expect = 8e-04
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 110 ttggatcatgcgatccctt 128
           |||||||||||||||||||
Sbjct: 79  ttggatcatgcgatccctt 97


>zma-MIR393a_MI0001845_Zea_mays_miR393a_stem-loop_126
          Length = 126

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

                                           
Query: 22 ggtggaggcttccaaagggatcgcattgatcta 54
          ||||||||  |||||||||||||||||||||||
Sbjct: 11 ggtggaggactccaaagggatcgcattgatcta 43


>ghr-MIR393_MI0013541_Gossypium_hirsutum_miR393_stem-loop_139
          Length = 139

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

                                   
Query: 32 tccaaagggatcgcattgatctaat 56
          |||||||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatctaat 35



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

                                            
Query: 110 ttggatcatgcgatcccttcggacgtttccatc 142
           |||||||||||||||||||||||  ||||||||
Sbjct: 107 ttggatcatgcgatcccttcggaattttccatc 139


>ptc-MIR393b_MI0002310_Populus_trichocarpa_miR393b_stem-loop_84
          Length = 84

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcatccaaagggatcgcattgatc 31


>ptc-MIR393a_MI0002309_Populus_trichocarpa_miR393a_stem-loop_85
          Length = 85

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcatccaaagggatcgcattgatc 31


>vvi-MIR393b_MI0006553_Vitis_vinifera_miR393b_stem-loop_83
          Length = 83

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcatccaaagggatcgcattgatc 31


>zma-MIR393c_MI0013211_Zea_mays_miR393c_stem-loop_97
          Length = 97

 Score = 48.1 bits (24), Expect = 8e-07
 Identities = 24/24 (100%)
 Strand = Plus / Plus

                                  
Query: 32 tccaaagggatcgcattgatctaa 55
          ||||||||||||||||||||||||
Sbjct: 2  tccaaagggatcgcattgatctaa 25


>mtr-MIR393_MI0001745_Medicago_truncatula_miR393_stem-loop_135
          Length = 135

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 14 ggaggcatccaaagggatcgcattgatc 41


>tcc-MIR393a_MI0017505_Theobroma_cacao_miR393a_stem-loop_118
          Length = 118

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 14 ggaggcatccaaagggatcgcattgatc 41


>gma-MIR393_MI0007216_Glycine_max_miR393_stem-loop_120
          Length = 120

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

                                      
Query: 25 ggaggcttccaaagggatcgcattgatc 52
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcatccaaagggatcgcattgatc 31


>bdi-MIR393b_MI0018123_Brachypodium_distachyon_miR393b_stem-
          loop_174
          Length = 174

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

                                         
Query: 23 gtggaggcttccaaagggatcgcattgatct 53
          |||||||  ||||||||||||||||||||||
Sbjct: 33 gtggaggactccaaagggatcgcattgatct 63


>osa-MIR393b_MI0001148_Oryza_sativa_miR393b_stem-loop_132
          Length = 132

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

                                         
Query: 23 gtggaggcttccaaagggatcgcattgatct 53
          |||||||  ||||||||||||||||||||||
Sbjct: 18 gtggaggactccaaagggatcgcattgatct 48


>vvi-MIR393a_MI0007952_Vitis_vinifera_miR393a_stem-loop_126
          Length = 126

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

                                
Query: 31 ttccaaagggatcgcattgatc 52
          ||||||||||||||||||||||
Sbjct: 10 ttccaaagggatcgcattgatc 31


>mtr-MIR393b_MI0005601_Medicago_truncatula_miR393b_stem-loop_119
          Length = 119

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

                                    
Query: 27 aggcttccaaagggatcgcattgatc 52
          |||| |||||||||||||||||||||
Sbjct: 1  aggcatccaaagggatcgcattgatc 26


>sbi-MIR393b_MI0010888_Sorghum_bicolor_miR393b_stem-loop_84
          Length = 84

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

                                
Query: 32 tccaaagggatcgcattgatct 53
          ||||||||||||||||||||||
Sbjct: 1  tccaaagggatcgcattgatct 22


>aly-MIR393b_MI0014573_Arabidopsis_lyrata_miR393b_stem-loop_169
          Length = 169

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 18 tccaaagggatcgcattgatc 38


>bna-MIR393_MI0005772_Brassica_napus_miR393_stem-loop_127
          Length = 127

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 1  tccaaagggatcgcattgatc 21


>bdi-MIR393a_MI0018119_Brachypodium_distachyon_miR393a_stem-
          loop_159
          Length = 159

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 36 tccaaagggatcgcattgatc 56


>osa-MIR393_MI0001026_Oryza_sativa_miR393_stem-loop_115
          Length = 115

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


>ath-MIR393a_MI0001003_Arabidopsis_thaliana_miR393a_stem-loop_133
          Length = 133

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


>aly-MIR393a_MI0014572_Arabidopsis_lyrata_miR393a_stem-loop_147
          Length = 147

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 18 tccaaagggatcgcattgatc 38


>zma-MIR393b_MI0013210_Zea_mays_miR393b_stem-loop_108
          Length = 108

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 2  tccaaagggatcgcattgatc 22


>sbi-MIR393_MI0001530_Sorghum_bicolor_miR393_stem-loop_139
          Length = 139

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 20 tccaaagggatcgcattgatc 40


>csi-MIR393_MI0016703_Citrus_sinensis_miR393_stem-loop_145
          Length = 145

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 21 tccaaagggatcgcattgatc 41


>ath-MIR393b_MI0001004_Arabidopsis_thaliana_miR393b_stem-loop_160
          Length = 160

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

                               
Query: 32 tccaaagggatcgcattgatc 52
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


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.