(152 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR393d_MI0023165_131                                             260   1e-70
mdm-MIR393c_MI0023081_131                                             260   1e-70
mdm-MIR393b_MI0023080_131                                             260   1e-70
mdm-MIR393e_MI0023166_131                                             260   1e-70
mdm-MIR393a_MI0023079_119                                             105   4e-24
mdm-MIR393f_MI0023167_119                                             105   4e-24
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-MIR393d_MI0023165_131
          Length = 131

 Score =  260 bits (131), Expect = 1e-70
 Identities = 131/131 (100%)
 Strand = Plus / Plus

                                                                       
Query: 12  ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 71
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 72  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 131
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

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


>mdm-MIR393c_MI0023081_131
          Length = 131

 Score =  260 bits (131), Expect = 1e-70
 Identities = 131/131 (100%)
 Strand = Plus / Plus

                                                                       
Query: 12  ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 71
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 72  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 131
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

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


>mdm-MIR393b_MI0023080_131
          Length = 131

 Score =  260 bits (131), Expect = 1e-70
 Identities = 131/131 (100%)
 Strand = Plus / Plus

                                                                       
Query: 12  ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 71
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 72  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 131
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

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


>mdm-MIR393e_MI0023166_131
          Length = 131

 Score =  260 bits (131), Expect = 1e-70
 Identities = 131/131 (100%)
 Strand = Plus / Plus

                                                                       
Query: 12  ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 71
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ggtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatcc 60

                                                                       
Query: 72  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 131
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gcatagacatatggtgggttatgttttcgtctgtgtagtcggatcatgcgatcccttcgg 120

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


>mdm-MIR393a_MI0023079_119
          Length = 119

 Score =  105 bits (53), Expect = 4e-24
 Identities = 65/69 (94%)
 Strand = Plus / Plus

                                                                      
Query: 13 gtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatccg 72
          |||||||||||||||||||||||||||||||||||||||| |||||||||||||| ||||
Sbjct: 1  gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 60

                   
Query: 73 catagacat 81
           | ||||||
Sbjct: 61 tacagacat 69


>mdm-MIR393f_MI0023167_119
          Length = 119

 Score =  105 bits (53), Expect = 4e-24
 Identities = 65/69 (94%)
 Strand = Plus / Plus

                                                                      
Query: 13 gtggaggcttccaaagggatcgcattgatctaattgatcagatatgtcaaacatcatccg 72
          |||||||||||||||||||||||||||||||||||||||| |||||||||||||| ||||
Sbjct: 1  gtggaggcttccaaagggatcgcattgatctaattgatcatatatgtcaaacatcgtccg 60

                   
Query: 73 catagacat 81
           | ||||||
Sbjct: 61 tacagacat 69


>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: 9  gcaggtggaggcttccaaagggatcgcattgatctaat 46
          ||||||||||   |||||||||||||||||||||||||
Sbjct: 8  gcaggtggagagctccaaagggatcgcattgatctaat 45



 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 28/31 (90%)
 Strand = Plus / Plus

                                          
Query: 112 ggatcatgcgatcccttcggacgtttccatc 142
           ||||||||| |||||||||||  ||||||||
Sbjct: 118 ggatcatgcaatcccttcggaattttccatc 148


>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: 21 ttccaaagggatcgcattgatctaat 46
          ||||||||||||||||||||||||||
Sbjct: 10 ttccaaagggatcgcattgatctaat 35


>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: 21 ttccaaagggatcgcattgatctaat 46
          ||||||||||||||||||||||||||
Sbjct: 10 ttccaaagggatcgcattgatctaat 35


>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: 21 ttccaaagggatcgcattgatctaat 46
          ||||||||||||||||||||||||||
Sbjct: 5  ttccaaagggatcgcattgatctaat 30


>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: 12 ggtggaggcttccaaagggatcgcattgatcta 44
          ||||||||  |||||||||||||||||||||||
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: 22 tccaaagggatcgcattgatctaat 46
          |||||||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatctaat 35



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

                                          
Query: 112 ggatcatgcgatcccttcggacgtttccatc 142
           |||||||||||||||||||||  ||||||||
Sbjct: 109 ggatcatgcgatcccttcggaattttccatc 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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatctaa 45
          ||||||||||||||||||||||||
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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 15 ggaggcttccaaagggatcgcattgatc 42
          |||||| |||||||||||||||||||||
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: 13 gtggaggcttccaaagggatcgcattgatct 43
          |||||||  ||||||||||||||||||||||
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: 13 gtggaggcttccaaagggatcgcattgatct 43
          |||||||  ||||||||||||||||||||||
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: 21 ttccaaagggatcgcattgatc 42
          ||||||||||||||||||||||
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: 17 aggcttccaaagggatcgcattgatc 42
          |||| |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatct 43
          ||||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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: 22 tccaaagggatcgcattgatc 42
          |||||||||||||||||||||
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.