(140 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mdm-MIR535b_MI0023129_95                                              188   3e-49
mdm-MIR535c_MI0023130_83                                              149   3e-37
mdm-MIR535a_MI0023128_95                                              141   6e-35
mdm-MIR535d_MI0023131_95                                              139   2e-34
rco-MIR535_MI0013431_Ricinus_communis_miR535_stem-loop_91              42   4e-05
vvi-MIR535a_MI0006580_Vitis_vinifera_miR535a_stem-loop_101             38   7e-04
ppt-MIR535b_MI0003503_Physcomitrella_patens_miR535b_stem-loop_81       38   7e-04
ppt-MIR535c_MI0003504_Physcomitrella_patens_miR535c_stem-loop_81       38   7e-04
vvi-MIR535b_MI0006581_Vitis_vinifera_miR535b_stem-loop_101             38   7e-04
ppt-MIR535a_MI0003502_Physcomitrella_patens_miR535a_stem-loop_135      38   7e-04

>mdm-MIR535b_MI0023129_95
          Length = 95

 Score =  188 bits (95), Expect = 3e-49
 Identities = 95/95 (100%)
 Strand = Plus / Plus

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

                                              
Query: 83  tttacgggcgtgctctctcttcttgtcatacggtc 117
           |||||||||||||||||||||||||||||||||||
Sbjct: 61  tttacgggcgtgctctctcttcttgtcatacggtc 95



 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 64/79 (81%)
 Strand = Plus / Minus

                                                                       
Query: 32  tgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttgtttacgggc 91
           ||||||| |||||||||||||  || | || |||||| | | |||||| || | ||  ||
Sbjct: 88  tgacaagaagagagagcacgcccgtaaacaaccatgatccgttcatgggtgatgacaagc 29

                              
Query: 92  gtgctctctcttcttgtca 110
           ||||||||||| |||||||
Sbjct: 28  gtgctctctctccttgtca 10


>mdm-MIR535c_MI0023130_83
          Length = 83

 Score =  149 bits (75), Expect = 3e-37
 Identities = 81/83 (97%)
 Strand = Plus / Plus

                                                                       
Query: 30  tgtgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttgtttacgg 89
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 1   tgtgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttgtttacag 60

                                  
Query: 90  gcgtgctctctcttcttgtcata 112
           | |||||||||||||||||||||
Sbjct: 61  gtgtgctctctcttcttgtcata 83



 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 64/79 (81%)
 Strand = Plus / Minus

                                                                       
Query: 32  tgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttgtttacgggc 91
           ||||||| ||||||||||| | ||| | || |||||| | | |||||| || | ||  ||
Sbjct: 81  tgacaagaagagagagcacacctgtaaacaaccatgatccgttcatgggtgatgacaagc 22

                              
Query: 92  gtgctctctcttcttgtca 110
           ||||||||||| |||||||
Sbjct: 21  gtgctctctctccttgtca 3


>mdm-MIR535a_MI0023128_95
          Length = 95

 Score =  141 bits (71), Expect = 6e-35
 Identities = 89/95 (93%)
 Strand = Plus / Plus

                                                                       
Query: 23  gatgttgtgtgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttg 82
           ||||||||||||||| |||||||||||||||||||||||| |||||| ||||||||||||
Sbjct: 1   gatgttgtgtgacaacgagagagagcacgcttgtcatcacgcatgaaaggatcatggttg 60

                                              
Query: 83  tttacgggcgtgctctctcttcttgtcatacggtc 117
           ||||||||||||| ||||||| ||||||| |||||
Sbjct: 61  tttacgggcgtgccctctcttgttgtcattcggtc 95


>mdm-MIR535d_MI0023131_95
          Length = 95

 Score =  139 bits (70), Expect = 2e-34
 Identities = 85/90 (94%)
 Strand = Plus / Plus

                                                                       
Query: 23  gatgttgtgtgacaaggagagagagcacgcttgtcatcacccatgaacggatcatggttg 82
           ||||||||||||| | ||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 1   gatgttgtgtgacgacgagagagagcacgcttgtcatcacccatgaaaggatcatggttg 60

                                         
Query: 83  tttacgggcgtgctctctcttcttgtcata 112
           |||||||||||||||| |||| ||||||||
Sbjct: 61  tttacgggcgtgctctttcttgttgtcata 90


>rco-MIR535_MI0013431_Ricinus_communis_miR535_stem-loop_91
          Length = 91

 Score = 42.1 bits (21), Expect = 4e-05
 Identities = 24/25 (96%)
 Strand = Plus / Plus

                                   
Query: 32 tgacaaggagagagagcacgcttgt 56
          |||||| ||||||||||||||||||
Sbjct: 6  tgacaacgagagagagcacgcttgt 30


>vvi-MIR535a_MI0006580_Vitis_vinifera_miR535a_stem-loop_101
          Length = 101

 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                     
Query: 32 tgacaaggagagagagcacgcttgtca 58
          |||||| ||||||||||||||| ||||
Sbjct: 11 tgacaacgagagagagcacgctagtca 37


>ppt-MIR535b_MI0003503_Physcomitrella_patens_miR535b_stem-loop_81
          Length = 81

 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 31 gtgacaaggagagagagcacgct 53
          ||||||| |||||||||||||||
Sbjct: 1  gtgacaacgagagagagcacgct 23


>ppt-MIR535c_MI0003504_Physcomitrella_patens_miR535c_stem-loop_81
          Length = 81

 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 31 gtgacaaggagagagagcacgct 53
          ||||||| |||||||||||||||
Sbjct: 1  gtgacaacgagagagagcacgct 23


>vvi-MIR535b_MI0006581_Vitis_vinifera_miR535b_stem-loop_101
          Length = 101

 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                     
Query: 32 tgacaaggagagagagcacgcttgtca 58
          |||||| ||||||||||||||| ||||
Sbjct: 11 tgacaacgagagagagcacgctagtca 37


>ppt-MIR535a_MI0003502_Physcomitrella_patens_miR535a_stem-loop_135
          Length = 135

 Score = 38.2 bits (19), Expect = 7e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                 
Query: 31 gtgacaaggagagagagcacgct 53
          ||||||| |||||||||||||||
Sbjct: 26 gtgacaacgagagagagcacgct 48


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.