(104 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR408a_MI0023117_123                                             206   9e-55
mdm-MIR408c_MI0023136_156                                             198   2e-52
mdm-MIR408d_MI0023137_85                                              168   2e-43
mdm-MIR408b_MI0023135_85                                              168   2e-43
mtr-MIR408_MI0019094_Medicago_truncatula_miR408_stem-loop_125          58   5e-10
vun-MIR408_MI0019578_Vigna_unguiculata_miR408_stem-loop_243            56   2e-09
gma-MIR408c_MI0018649_Glycine_max_miR408c_stem-loop_126                56   2e-09
ptc-MIR408_MI0002352_Populus_trichocarpa_miR408_stem-loop_105          54   8e-09
vvi-MIR408_MI0006578_Vitis_vinifera_miR408_stem-loop_107               52   3e-08
ath-MIR408_MI0001080_Arabidopsis_thaliana_miR408_stem-loop_218         52   3e-08
aly-MIR408_MI0014596_Arabidopsis_lyrata_miR408_stem-loop_211           52   3e-08
ppt-MIR408b_MI0005917_Physcomitrella_patens_miR408b_stem-loop_144      52   3e-08
gma-MIR408_MI0017848_Glycine_max_miR408_stem-loop_130                  50   1e-07
ahy-MIR408_MI0015340_Arachis_hypogaea_miR408_stem-loop_122             50   1e-07
gma-MIR408a_MI0018647_Glycine_max_miR408a_stem-loop_133                50   1e-07
gma-MIR408b_MI0018648_Glycine_max_miR408b_stem-loop_132                50   1e-07
aqc-MIR408_MI0012099_Aquilegia_caerulea_miR408_stem-loop_87            46   2e-06
rco-MIR408_MI0013430_Ricinus_communis_miR408_stem-loop_92              46   2e-06
csi-MIR408_MI0016715_Citrus_sinensis_miR408_stem-loop_153              46   2e-06
pta-MIR408_MI0005790_Pinus_taeda_miR408_stem-loop_86                   44   8e-06
smo-MIR408_MI0006061_Selaginella_moellendorffii_miR408_stem-loop...    44   8e-06
ssp-MIR408a_MI0018197_Saccharum_ssp._miR408a_stem-loop_248             42   3e-05
zma-MIR408b_MI0013237_Zea_mays_miR408b_stem-loop_147                   42   3e-05
sof-MIR408b_MI0001766_Saccharum_officinarum_miR408b_stem-loop_286      42   3e-05
zma-MIR408_MI0001846_Zea_mays_miR408_stem-loop_191                     42   3e-05
ssp-MIR408d_MI0018196_Saccharum_ssp._miR408d_stem-loop_180             42   3e-05
sof-MIR408d_MI0001768_Saccharum_officinarum_miR408d_stem-loop_215      42   3e-05
tae-MIR408_MI0006177_Triticum_aestivum_miR408_stem-loop_187            42   3e-05
sof-MIR408c_MI0001767_Saccharum_officinarum_miR408c_stem-loop_286      42   3e-05
osa-MIR408_MI0001149_Oryza_sativa_miR408_stem-loop_213                 42   3e-05
bdi-MIR408_MI0017941_Brachypodium_distachyon_miR408_stem-loop_145      42   3e-05
sbi-MIR408_MI0010901_Sorghum_bicolor_miR408_stem-loop_205              42   3e-05
sof-MIR408a_MI0001765_Saccharum_officinarum_miR408a_stem-loop_283      42   3e-05

>mdm-MIR408a_MI0023117_123
          Length = 123

 Score =  206 bits (104), Expect = 9e-55
 Identities = 104/104 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   agttaataagacagggaagaggtagagcatggatggagttctcaagagcaaaatagagct 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9   agttaataagacagggaagaggtagagcatggatggagttctcaagagcaaaatagagct 68

                                                       
Query: 61  cttgtgactctactcatgcactgcctcttccctggctttgcctc 104
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 69  cttgtgactctactcatgcactgcctcttccctggctttgcctc 112


>mdm-MIR408c_MI0023136_156
          Length = 156

 Score =  198 bits (100), Expect = 2e-52
 Identities = 103/104 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   agttaataagacagggaagaggtagagcatggatggagttctcaagagcaaaatagagct 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26  agttaataagacagggaagaggtagagcatggatggagttctcaagagcaaaatagagct 85

                                                       
Query: 61  cttgtgactctactcatgcactgcctcttccctggctttgcctc 104
           |||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 86  cttgtgactctactcatgcactgcctrttccctggctttgcctc 129


>mdm-MIR408d_MI0023137_85
          Length = 85

 Score =  168 bits (85), Expect = 2e-43
 Identities = 85/85 (100%)
 Strand = Plus / Plus

                                                                      
Query: 11 acagggaagaggtagagcatggatggagttctcaagagcaaaatagagctcttgtgactc 70
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  acagggaagaggtagagcatggatggagttctcaagagcaaaatagagctcttgtgactc 60

                                   
Query: 71 tactcatgcactgcctcttccctgg 95
          |||||||||||||||||||||||||
Sbjct: 61 tactcatgcactgcctcttccctgg 85


>mdm-MIR408b_MI0023135_85
          Length = 85

 Score =  168 bits (85), Expect = 2e-43
 Identities = 85/85 (100%)
 Strand = Plus / Plus

                                                                      
Query: 11 acagggaagaggtagagcatggatggagttctcaagagcaaaatagagctcttgtgactc 70
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  acagggaagaggtagagcatggatggagttctcaagagcaaaatagagctcttgtgactc 60

                                   
Query: 71 tactcatgcactgcctcttccctgg 95
          |||||||||||||||||||||||||
Sbjct: 61 tactcatgcactgcctcttccctgg 85


>mtr-MIR408_MI0019094_Medicago_truncatula_miR408_stem-loop_125
          Length = 125

 Score = 58.0 bits (29), Expect = 5e-10
 Identities = 35/37 (94%)
 Strand = Plus / Plus

                                                
Query: 62  ttgtgactctactcatgcactgcctcttccctggctt 98
           ||||| ||| |||||||||||||||||||||||||||
Sbjct: 71  ttgtggctccactcatgcactgcctcttccctggctt 107


>vun-MIR408_MI0019578_Vigna_unguiculata_miR408_stem-loop_243
          Length = 243

 Score = 56.0 bits (28), Expect = 2e-09
 Identities = 34/36 (94%)
 Strand = Plus / Plus

                                               
Query: 62  ttgtgactctactcatgcactgcctcttccctggct 97
           |||||| ||| |||||||||||||||||||||||||
Sbjct: 132 ttgtgattctgctcatgcactgcctcttccctggct 167


>gma-MIR408c_MI0018649_Glycine_max_miR408c_stem-loop_126
          Length = 126

 Score = 56.0 bits (28), Expect = 2e-09
 Identities = 28/28 (100%)
 Strand = Plus / Plus

                                       
Query: 73  ctcatgcactgcctcttccctggctttg 100
           ||||||||||||||||||||||||||||
Sbjct: 97  ctcatgcactgcctcttccctggctttg 124


>ptc-MIR408_MI0002352_Populus_trichocarpa_miR408_stem-loop_105
          Length = 105

 Score = 54.0 bits (27), Expect = 8e-09
 Identities = 30/31 (96%)
 Strand = Plus / Plus

                                         
Query: 68 ctctactcatgcactgcctcttccctggctt 98
          |||||| ||||||||||||||||||||||||
Sbjct: 68 ctctacccatgcactgcctcttccctggctt 98



 Score = 38.2 bits (19), Expect = 5e-04
 Identities = 28/31 (90%)
 Strand = Plus / Plus

                                         
Query: 8  aagacagggaagaggtagagcatggatggag 38
          ||||| ||||| ||| |||||||||||||||
Sbjct: 12 aagacggggaacaggcagagcatggatggag 42


>vvi-MIR408_MI0006578_Vitis_vinifera_miR408_stem-loop_107
          Length = 107

 Score = 52.0 bits (26), Expect = 3e-08
 Identities = 29/30 (96%)
 Strand = Plus / Plus

                                        
Query: 68 ctctactcatgcactgcctcttccctggct 97
          |||||| |||||||||||||||||||||||
Sbjct: 69 ctctacccatgcactgcctcttccctggct 98


>ath-MIR408_MI0001080_Arabidopsis_thaliana_miR408_stem-loop_218
          Length = 218

 Score = 52.0 bits (26), Expect = 3e-08
 Identities = 29/30 (96%)
 Strand = Plus / Plus

                                         
Query: 68  ctctactcatgcactgcctcttccctggct 97
           |||||| |||||||||||||||||||||||
Sbjct: 112 ctctacccatgcactgcctcttccctggct 141


>aly-MIR408_MI0014596_Arabidopsis_lyrata_miR408_stem-loop_211
          Length = 211

 Score = 52.0 bits (26), Expect = 3e-08
 Identities = 29/30 (96%)
 Strand = Plus / Plus

                                         
Query: 68  ctctactcatgcactgcctcttccctggct 97
           |||||| |||||||||||||||||||||||
Sbjct: 109 ctctacccatgcactgcctcttccctggct 138


>ppt-MIR408b_MI0005917_Physcomitrella_patens_miR408b_stem-loop_144
          Length = 144

 Score = 52.0 bits (26), Expect = 3e-08
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                     
Query: 73  ctcatgcactgcctcttccctggctt 98
           ||||||||||||||||||||||||||
Sbjct: 90  ctcatgcactgcctcttccctggctt 115


>gma-MIR408_MI0017848_Glycine_max_miR408_stem-loop_130
          Length = 130

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

                                    
Query: 73  ctcatgcactgcctcttccctggct 97
           |||||||||||||||||||||||||
Sbjct: 98  ctcatgcactgcctcttccctggct 122


>ahy-MIR408_MI0015340_Arachis_hypogaea_miR408_stem-loop_122
          Length = 122

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

                                    
Query: 73  ctcatgcactgcctcttccctggct 97
           |||||||||||||||||||||||||
Sbjct: 78  ctcatgcactgcctcttccctggct 102


>gma-MIR408a_MI0018647_Glycine_max_miR408a_stem-loop_133
          Length = 133

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

                                    
Query: 73  ctcatgcactgcctcttccctggct 97
           |||||||||||||||||||||||||
Sbjct: 102 ctcatgcactgcctcttccctggct 126


>gma-MIR408b_MI0018648_Glycine_max_miR408b_stem-loop_132
          Length = 132

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

                                    
Query: 73  ctcatgcactgcctcttccctggct 97
           |||||||||||||||||||||||||
Sbjct: 103 ctcatgcactgcctcttccctggct 127


>aqc-MIR408_MI0012099_Aquilegia_caerulea_miR408_stem-loop_87
          Length = 87

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

                                 
Query: 75 catgcactgcctcttccctggct 97
          |||||||||||||||||||||||
Sbjct: 23 catgcactgcctcttccctggct 1


>rco-MIR408_MI0013430_Ricinus_communis_miR408_stem-loop_92
          Length = 92

 Score = 46.1 bits (23), Expect = 2e-06
 Identities = 29/31 (93%)
 Strand = Plus / Plus

                                         
Query: 68 ctctactcatgcactgcctcttccctggctt 98
          |||||| | ||||||||||||||||||||||
Sbjct: 59 ctctacccctgcactgcctcttccctggctt 89


>csi-MIR408_MI0016715_Citrus_sinensis_miR408_stem-loop_153
          Length = 153

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

                                  
Query: 75  catgcactgcctcttccctggct 97
           |||||||||||||||||||||||
Sbjct: 119 catgcactgcctcttccctggct 141


>pta-MIR408_MI0005790_Pinus_taeda_miR408_stem-loop_86
          Length = 86

 Score = 44.1 bits (22), Expect = 8e-06
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 76 atgcactgcctcttccctggct 97
          ||||||||||||||||||||||
Sbjct: 64 atgcactgcctcttccctggct 85


>smo-MIR408_MI0006061_Selaginella_moellendorffii_miR408_stem-
          loop_109
          Length = 109

 Score = 44.1 bits (22), Expect = 8e-06
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                
Query: 76 atgcactgcctcttccctggct 97
          ||||||||||||||||||||||
Sbjct: 76 atgcactgcctcttccctggct 97


>ssp-MIR408a_MI0018197_Saccharum_ssp._miR408a_stem-loop_248
          Length = 248

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 227 tgcactgcctcttccctggct 247


>zma-MIR408b_MI0013237_Zea_mays_miR408b_stem-loop_147
          Length = 147

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 126 tgcactgcctcttccctggct 146


>sof-MIR408b_MI0001766_Saccharum_officinarum_miR408b_stem-loop_286
          Length = 286

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 248 tgcactgcctcttccctggct 268


>zma-MIR408_MI0001846_Zea_mays_miR408_stem-loop_191
          Length = 191

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 153 tgcactgcctcttccctggct 173


>ssp-MIR408d_MI0018196_Saccharum_ssp._miR408d_stem-loop_180
          Length = 180

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 159 tgcactgcctcttccctggct 179


>sof-MIR408d_MI0001768_Saccharum_officinarum_miR408d_stem-loop_215
          Length = 215

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 177 tgcactgcctcttccctggct 197


>tae-MIR408_MI0006177_Triticum_aestivum_miR408_stem-loop_187
          Length = 187

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 137 tgcactgcctcttccctggct 157


>sof-MIR408c_MI0001767_Saccharum_officinarum_miR408c_stem-loop_286
          Length = 286

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 248 tgcactgcctcttccctggct 268


>osa-MIR408_MI0001149_Oryza_sativa_miR408_stem-loop_213
          Length = 213

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 154 tgcactgcctcttccctggct 174


>bdi-MIR408_MI0017941_Brachypodium_distachyon_miR408_stem-loop_145
          Length = 145

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 118 tgcactgcctcttccctggct 138


>sbi-MIR408_MI0010901_Sorghum_bicolor_miR408_stem-loop_205
          Length = 205

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 185 tgcactgcctcttccctggct 205


>sof-MIR408a_MI0001765_Saccharum_officinarum_miR408a_stem-loop_283
          Length = 283

 Score = 42.1 bits (21), Expect = 3e-05
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                
Query: 77  tgcactgcctcttccctggct 97
           |||||||||||||||||||||
Sbjct: 245 tgcactgcctcttccctggct 265


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.