(117 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ptc-MIR393a_MI0002309_Populus_trichocarpa_miR393a_stem-loop_85         68   6e-13
tcc-MIR393a_MI0017505_Theobroma_cacao_miR393a_stem-loop_118            68   6e-13
ptc-MIR393b_MI0002310_Populus_trichocarpa_miR393b_stem-loop_84         66   2e-12
vvi-MIR393b_MI0006553_Vitis_vinifera_miR393b_stem-loop_83              66   2e-12
gma-MIR393_MI0007216_Glycine_max_miR393_stem-loop_120                  66   2e-12
mtr-MIR393_MI0001745_Medicago_truncatula_miR393_stem-loop_135          62   4e-11
mtr-MIR393b_MI0005601_Medicago_truncatula_miR393b_stem-loop_119        58   6e-10
sbi-MIR393_MI0001530_Sorghum_bicolor_miR393_stem-loop_139              54   9e-09
aly-MIR393b_MI0014573_Arabidopsis_lyrata_miR393b_stem-loop_169         52   4e-08
aly-MIR393a_MI0014572_Arabidopsis_lyrata_miR393a_stem-loop_147         52   4e-08
bdi-MIR393a_MI0018119_Brachypodium_distachyon_miR393a_stem-loop_159    50   1e-07
osa-MIR393_MI0001026_Oryza_sativa_miR393_stem-loop_115                 50   1e-07
mdm-MIR393a_MI0023079_119                                              48   6e-07
vvi-MIR393a_MI0007952_Vitis_vinifera_miR393a_stem-loop_126             48   6e-07
mdm-MIR393d_MI0023165_131                                              48   6e-07
ath-MIR393a_MI0001003_Arabidopsis_thaliana_miR393a_stem-loop_133       48   6e-07
mdm-MIR393c_MI0023081_131                                              48   6e-07
mdm-MIR393b_MI0023080_131                                              48   6e-07
mdm-MIR393f_MI0023167_119                                              48   6e-07
mdm-MIR393e_MI0023166_131                                              48   6e-07
csi-MIR393_MI0016703_Citrus_sinensis_miR393_stem-loop_145              46   2e-06
ath-MIR393b_MI0001004_Arabidopsis_thaliana_miR393b_stem-loop_160       46   2e-06
bna-MIR393_MI0005772_Brassica_napus_miR393_stem-loop_127               44   9e-06
zma-MIR393b_MI0013210_Zea_mays_miR393b_stem-loop_108                   44   9e-06
bdi-MIR393b_MI0018123_Brachypodium_distachyon_miR393b_stem-loop_174    42   4e-05
zma-MIR393a_MI0001845_Zea_mays_miR393a_stem-loop_126                   42   4e-05
tcc-MIR393b_MI0017506_Theobroma_cacao_miR393b_stem-loop_158            42   4e-05
osa-MIR393b_MI0001148_Oryza_sativa_miR393b_stem-loop_132               42   4e-05
ghr-MIR393_MI0013541_Gossypium_hirsutum_miR393_stem-loop_139           42   4e-05
zma-MIR393c_MI0013211_Zea_mays_miR393c_stem-loop_97                    42   4e-05
ptc-MIR393d_MI0002312_Populus_trichocarpa_miR393d_stem-loop_107        42   4e-05
sbi-MIR393b_MI0010888_Sorghum_bicolor_miR393b_stem-loop_84             42   4e-05
ptc-MIR393c_MI0002311_Populus_trichocarpa_miR393c_stem-loop_107        42   4e-05
rco-MIR393_MI0013412_Ricinus_communis_miR393_stem-loop_108             42   4e-05

>ptc-MIR393a_MI0002309_Populus_trichocarpa_miR393a_stem-loop_85
          Length = 85

 Score = 67.9 bits (34), Expect = 6e-13
 Identities = 34/34 (100%)
 Strand = Plus / Plus

                                            
Query: 13 agaggaggcatccaaagggatcgcattgatccca 46
          ||||||||||||||||||||||||||||||||||
Sbjct: 1  agaggaggcatccaaagggatcgcattgatccca 34



 Score = 56.0 bits (28), Expect = 2e-09
 Identities = 31/32 (96%)
 Strand = Plus / Plus

                                           
Query: 73  tttggatcatgctatccctttggatttctcct 104
           |||||||||||||||||||||||||| |||||
Sbjct: 54  tttggatcatgctatccctttggattcctcct 85


>tcc-MIR393a_MI0017505_Theobroma_cacao_miR393a_stem-loop_118
          Length = 118

 Score = 67.9 bits (34), Expect = 6e-13
 Identities = 34/34 (100%)
 Strand = Plus / Plus

                                            
Query: 11 ctagaggaggcatccaaagggatcgcattgatcc 44
          ||||||||||||||||||||||||||||||||||
Sbjct: 9  ctagaggaggcatccaaagggatcgcattgatcc 42



 Score = 63.9 bits (32), Expect = 1e-11
 Identities = 35/36 (97%)
 Strand = Plus / Plus

                                               
Query: 73  tttggatcatgctatccctttggatttctcctttgg 108
           |||||||||||||||||||||||||| |||||||||
Sbjct: 75  tttggatcatgctatccctttggattcctcctttgg 110


>ptc-MIR393b_MI0002310_Populus_trichocarpa_miR393b_stem-loop_84
          Length = 84

 Score = 65.9 bits (33), Expect = 2e-12
 Identities = 33/33 (100%)
 Strand = Plus / Plus

                                           
Query: 13 agaggaggcatccaaagggatcgcattgatccc 45
          |||||||||||||||||||||||||||||||||
Sbjct: 1  agaggaggcatccaaagggatcgcattgatccc 33



 Score = 56.0 bits (28), Expect = 2e-09
 Identities = 31/32 (96%)
 Strand = Plus / Plus

                                           
Query: 73  tttggatcatgctatccctttggatttctcct 104
           |||||||||||||||||||||||||| |||||
Sbjct: 53  tttggatcatgctatccctttggattcctcct 84


>vvi-MIR393b_MI0006553_Vitis_vinifera_miR393b_stem-loop_83
          Length = 83

 Score = 65.9 bits (33), Expect = 2e-12
 Identities = 33/33 (100%)
 Strand = Plus / Plus

                                           
Query: 14 gaggaggcatccaaagggatcgcattgatccca 46
          |||||||||||||||||||||||||||||||||
Sbjct: 2  gaggaggcatccaaagggatcgcattgatccca 34



 Score = 63.9 bits (32), Expect = 1e-11
 Identities = 35/36 (97%)
 Strand = Plus / Plus

                                               
Query: 73  tttggatcatgctatccctttggatttctcctttgg 108
           |||||||||||||||||||||||||| |||||||||
Sbjct: 48  tttggatcatgctatccctttggattcctcctttgg 83


>gma-MIR393_MI0007216_Glycine_max_miR393_stem-loop_120
          Length = 120

 Score = 65.9 bits (33), Expect = 2e-12
 Identities = 33/33 (100%)
 Strand = Plus / Plus

                                           
Query: 14 gaggaggcatccaaagggatcgcattgatccca 46
          |||||||||||||||||||||||||||||||||
Sbjct: 2  gaggaggcatccaaagggatcgcattgatccca 34



 Score = 61.9 bits (31), Expect = 4e-11
 Identities = 31/31 (100%)
 Strand = Plus / Plus

                                          
Query: 76  ggatcatgctatccctttggatttctccttt 106
           |||||||||||||||||||||||||||||||
Sbjct: 90  ggatcatgctatccctttggatttctccttt 120


>mtr-MIR393_MI0001745_Medicago_truncatula_miR393_stem-loop_135
          Length = 135

 Score = 61.9 bits (31), Expect = 4e-11
 Identities = 31/31 (100%)
 Strand = Plus / Plus

                                         
Query: 14 gaggaggcatccaaagggatcgcattgatcc 44
          |||||||||||||||||||||||||||||||
Sbjct: 12 gaggaggcatccaaagggatcgcattgatcc 42



 Score = 54.0 bits (27), Expect = 9e-09
 Identities = 30/31 (96%)
 Strand = Plus / Plus

                                          
Query: 76  ggatcatgctatccctttggatttctccttt 106
           ||||||||| |||||||||||||||||||||
Sbjct: 96  ggatcatgccatccctttggatttctccttt 126


>mtr-MIR393b_MI0005601_Medicago_truncatula_miR393b_stem-loop_119
          Length = 119

 Score = 58.0 bits (29), Expect = 6e-10
 Identities = 29/29 (100%)
 Strand = Plus / Plus

                                       
Query: 18 aggcatccaaagggatcgcattgatccca 46
          |||||||||||||||||||||||||||||
Sbjct: 1  aggcatccaaagggatcgcattgatccca 29



 Score = 46.1 bits (23), Expect = 2e-06
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                  
Query: 76  ggatcatgctatccctttggatt 98
           |||||||||||||||||||||||
Sbjct: 94  ggatcatgctatccctttggatt 116


>sbi-MIR393_MI0001530_Sorghum_bicolor_miR393_stem-loop_139
          Length = 139

 Score = 54.0 bits (27), Expect = 9e-09
 Identities = 30/31 (96%)
 Strand = Plus / Plus

                                         
Query: 14 gaggaggcatccaaagggatcgcattgatcc 44
          ||||| |||||||||||||||||||||||||
Sbjct: 11 gaggaagcatccaaagggatcgcattgatcc 41


>aly-MIR393b_MI0014573_Arabidopsis_lyrata_miR393b_stem-loop_169
          Length = 169

 Score = 52.0 bits (26), Expect = 4e-08
 Identities = 32/34 (94%)
 Strand = Plus / Plus

                                            
Query: 11 ctagaggaggcatccaaagggatcgcattgatcc 44
          |||||| | |||||||||||||||||||||||||
Sbjct: 6  ctagagaaagcatccaaagggatcgcattgatcc 39


>aly-MIR393a_MI0014572_Arabidopsis_lyrata_miR393a_stem-loop_147
          Length = 147

 Score = 52.0 bits (26), Expect = 4e-08
 Identities = 32/34 (94%)
 Strand = Plus / Plus

                                            
Query: 11 ctagaggaggcatccaaagggatcgcattgatcc 44
          |||||||| | |||||||||||||||||||||||
Sbjct: 6  ctagaggaaggatccaaagggatcgcattgatcc 39



 Score = 44.1 bits (22), Expect = 9e-06
 Identities = 25/26 (96%)
 Strand = Plus / Plus

                                     
Query: 73  tttggatcatgctatccctttggatt 98
           |||||||||||||||| |||||||||
Sbjct: 107 tttggatcatgctatctctttggatt 132


>bdi-MIR393a_MI0018119_Brachypodium_distachyon_miR393a_stem-
          loop_159
          Length = 159

 Score = 50.1 bits (25), Expect = 1e-07
 Identities = 25/25 (100%)
 Strand = Plus / Plus

                                   
Query: 20 gcatccaaagggatcgcattgatcc 44
          |||||||||||||||||||||||||
Sbjct: 33 gcatccaaagggatcgcattgatcc 57


>osa-MIR393_MI0001026_Oryza_sativa_miR393_stem-loop_115
          Length = 115

 Score = 50.1 bits (25), Expect = 1e-07
 Identities = 25/25 (100%)
 Strand = Plus / Plus

                                   
Query: 20 gcatccaaagggatcgcattgatcc 44
          |||||||||||||||||||||||||
Sbjct: 8  gcatccaaagggatcgcattgatcc 32


>mdm-MIR393a_MI0023079_119
          Length = 119

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 3  ggaggcttccaaagggatcgcattgatc 30


>vvi-MIR393a_MI0007952_Vitis_vinifera_miR393a_stem-loop_126
          Length = 126

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 24/24 (100%)
 Strand = Plus / Plus

                                  
Query: 23 tccaaagggatcgcattgatccca 46
          ||||||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatccca 34



 Score = 38.2 bits (19), Expect = 5e-04
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 74  ttggatcatgctatccctt 92
           |||||||||||||||||||
Sbjct: 92  ttggatcatgctatccctt 110


>mdm-MIR393d_MI0023165_131
          Length = 131

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcttccaaagggatcgcattgatc 31


>ath-MIR393a_MI0001003_Arabidopsis_thaliana_miR393a_stem-loop_133
          Length = 133

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 30/32 (93%)
 Strand = Plus / Plus

                                          
Query: 13 agaggaggcatccaaagggatcgcattgatcc 44
          |||||| | |||||||||||||||||||||||
Sbjct: 1  agaggaaggatccaaagggatcgcattgatcc 32



 Score = 44.1 bits (22), Expect = 9e-06
 Identities = 25/26 (96%)
 Strand = Plus / Plus

                                     
Query: 73  tttggatcatgctatccctttggatt 98
           |||||||||||||||| |||||||||
Sbjct: 100 tttggatcatgctatctctttggatt 125


>mdm-MIR393c_MI0023081_131
          Length = 131

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcttccaaagggatcgcattgatc 31


>mdm-MIR393b_MI0023080_131
          Length = 131

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcttccaaagggatcgcattgatc 31


>mdm-MIR393f_MI0023167_119
          Length = 119

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 3  ggaggcttccaaagggatcgcattgatc 30


>mdm-MIR393e_MI0023166_131
          Length = 131

 Score = 48.1 bits (24), Expect = 6e-07
 Identities = 27/28 (96%)
 Strand = Plus / Plus

                                      
Query: 16 ggaggcatccaaagggatcgcattgatc 43
          |||||| |||||||||||||||||||||
Sbjct: 4  ggaggcttccaaagggatcgcattgatc 31


>csi-MIR393_MI0016703_Citrus_sinensis_miR393_stem-loop_145
          Length = 145

 Score = 46.1 bits (23), Expect = 2e-06
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                 
Query: 22 atccaaagggatcgcattgatcc 44
          |||||||||||||||||||||||
Sbjct: 20 atccaaagggatcgcattgatcc 42


>ath-MIR393b_MI0001004_Arabidopsis_thaliana_miR393b_stem-loop_160
          Length = 160

 Score = 46.1 bits (23), Expect = 2e-06
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                 
Query: 22 atccaaagggatcgcattgatcc 44
          |||||||||||||||||||||||
Sbjct: 10 atccaaagggatcgcattgatcc 32


>bna-MIR393_MI0005772_Brassica_napus_miR393_stem-loop_127
          Length = 127

 Score = 44.1 bits (22), Expect = 9e-06
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 23 tccaaagggatcgcattgatcc 44
          ||||||||||||||||||||||
Sbjct: 1  tccaaagggatcgcattgatcc 22


>zma-MIR393b_MI0013210_Zea_mays_miR393b_stem-loop_108
          Length = 108

 Score = 44.1 bits (22), Expect = 9e-06
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 23 tccaaagggatcgcattgatcc 44
          ||||||||||||||||||||||
Sbjct: 2  tccaaagggatcgcattgatcc 23


>bdi-MIR393b_MI0018123_Brachypodium_distachyon_miR393b_stem-
          loop_174
          Length = 174

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 42 tccaaagggatcgcattgatc 62


>zma-MIR393a_MI0001845_Zea_mays_miR393a_stem-loop_126
          Length = 126

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 21 tccaaagggatcgcattgatc 41


>tcc-MIR393b_MI0017506_Theobroma_cacao_miR393b_stem-loop_158
          Length = 158

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 21 tccaaagggatcgcattgatc 41


>osa-MIR393b_MI0001148_Oryza_sativa_miR393b_stem-loop_132
          Length = 132

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 27 tccaaagggatcgcattgatc 47


>ghr-MIR393_MI0013541_Gossypium_hirsutum_miR393_stem-loop_139
          Length = 139

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


>zma-MIR393c_MI0013211_Zea_mays_miR393c_stem-loop_97
          Length = 97

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 2  tccaaagggatcgcattgatc 22


>ptc-MIR393d_MI0002312_Populus_trichocarpa_miR393d_stem-loop_107
          Length = 107

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


>sbi-MIR393b_MI0010888_Sorghum_bicolor_miR393b_stem-loop_84
          Length = 84

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 1  tccaaagggatcgcattgatc 21


>ptc-MIR393c_MI0002311_Populus_trichocarpa_miR393c_stem-loop_107
          Length = 107

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 11 tccaaagggatcgcattgatc 31


>rco-MIR393_MI0013412_Ricinus_communis_miR393_stem-loop_108
          Length = 108

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 23 tccaaagggatcgcattgatc 43
          |||||||||||||||||||||
Sbjct: 6  tccaaagggatcgcattgatc 26


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.