(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-MIR398b_MI0023103_98                                              194   3e-51
mdm-MIR398c_MI0023104_101                                             137   7e-34
tcc-MIR398a_MI0017517_Theobroma_cacao_miR398a_stem-loop_125            52   3e-08
ptc-MIR398c_MI0002337_Populus_trichocarpa_miR398c_stem-loop_97         46   2e-06
rco-MIR398b_MI0013421_Ricinus_communis_miR398b_stem-loop_126           46   2e-06
gma-MIR398c_MI0017847_Glycine_max_miR398c_stem-loop_110                46   2e-06
vvi-MIR398c_MI0007959_Vitis_vinifera_miR398c_stem-loop_88              46   2e-06
ptc-MIR398b_MI0002336_Populus_trichocarpa_miR398b_stem-loop_85         46   2e-06
vvi-MIR398b_MI0007958_Vitis_vinifera_miR398b_stem-loop_88              46   2e-06
mtr-MIR398b_MI0005602_Medicago_truncatula_miR398b_stem-loop_87         46   2e-06
aqc-MIR398b_MI0012097_Aquilegia_caerulea_miR398b_stem-loop_93          46   2e-06
osa-MIR398b_MI0001052_Oryza_sativa_miR398b_stem-loop_88                44   8e-06
mtr-MIR398c_MI0005611_Medicago_truncatula_miR398c_stem-loop_87         44   8e-06
bdi-MIR398c_MI0018228_Brachypodium_distachyon_miR398c_stem-loop_131    44   8e-06
bdi-MIR398a_MI0018116_Brachypodium_distachyon_miR398a_stem-loop_150    44   8e-06
sbi-MIR398_MI0013257_Sorghum_bicolor_miR398_stem-loop_109              40   1e-04
zma-MIR398a_MI0013231_Zea_mays_miR398a_stem-loop_140                   40   1e-04
tae-MIR398_MI0016466_Triticum_aestivum_miR398_stem-loop_120            40   1e-04
zma-MIR398b_MI0013232_Zea_mays_miR398b_stem-loop_108                   40   1e-04
ath-MIR398b_MI0001018_Arabidopsis_thaliana_miR398b_stem-loop_116       38   5e-04
aly-MIR398b_MI0014586_Arabidopsis_lyrata_miR398b_stem-loop_142         38   5e-04
ath-MIR398c_MI0001019_Arabidopsis_thaliana_miR398c_stem-loop_115       38   5e-04

>mdm-MIR398b_MI0023103_98
          Length = 98

 Score =  194 bits (98), Expect = 3e-51
 Identities = 98/98 (100%)
 Strand = Plus / Plus

                                                                       
Query: 5   ggtagaggggttccacaggagtgacctgagatcacatgtagcatttatgtattgcgcttg 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ggtagaggggttccacaggagtgacctgagatcacatgtagcatttatgtattgcgcttg 60

                                                 
Query: 65  atgtgttctcaggtcgcccctgcggtaccttctctacc 102
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 61  atgtgttctcaggtcgcccctgcggtaccttctctacc 98


>mdm-MIR398c_MI0023104_101
          Length = 101

 Score =  137 bits (69), Expect = 7e-34
 Identities = 94/101 (93%), Gaps = 1/101 (0%)
 Strand = Plus / Plus

                                                                       
Query: 3   gcggtagaggggttccacaggagtgacctgagatcacatgtagcatttatgtattgcgct 62
           |||||||||||||||  |||||||||||||||||||||| | || || |||| |||||||
Sbjct: 1   gcggtagaggggttctgcaggagtgacctgagatcacatatggcgtt-atgtgttgcgct 59

                                                    
Query: 63  tgatgtgttctcaggtcgcccctgcggtaccttctctacca 103
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 60  tgatgtgttctcaggtcgcccctgcggtaccttctctacca 100


>tcc-MIR398a_MI0017517_Theobroma_cacao_miR398a_stem-loop_125
          Length = 125

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

                                     
Query: 62  ttgatgtgttctcaggtcgcccctgc 87
           ||||||||||||||||||||||||||
Sbjct: 81  ttgatgtgttctcaggtcgcccctgc 106


>ptc-MIR398c_MI0002337_Populus_trichocarpa_miR398c_stem-loop_97
          Length = 97

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 67 atgtgttctcaggtcgcccctgc 89


>rco-MIR398b_MI0013421_Ricinus_communis_miR398b_stem-loop_126
          Length = 126

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

                                  
Query: 65  atgtgttctcaggtcgcccctgc 87
           |||||||||||||||||||||||
Sbjct: 100 atgtgttctcaggtcgcccctgc 122


>gma-MIR398c_MI0017847_Glycine_max_miR398c_stem-loop_110
          Length = 110

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

                                  
Query: 65  atgtgttctcaggtcgcccctgc 87
           |||||||||||||||||||||||
Sbjct: 79  atgtgttctcaggtcgcccctgc 101


>vvi-MIR398c_MI0007959_Vitis_vinifera_miR398c_stem-loop_88
          Length = 88

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 57 atgtgttctcaggtcgcccctgc 79


>ptc-MIR398b_MI0002336_Populus_trichocarpa_miR398b_stem-loop_85
          Length = 85

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 55 atgtgttctcaggtcgcccctgc 77


>vvi-MIR398b_MI0007958_Vitis_vinifera_miR398b_stem-loop_88
          Length = 88

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 57 atgtgttctcaggtcgcccctgc 79


>mtr-MIR398b_MI0005602_Medicago_truncatula_miR398b_stem-loop_87
          Length = 87

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 61 atgtgttctcaggtcgcccctgc 83


>aqc-MIR398b_MI0012097_Aquilegia_caerulea_miR398b_stem-loop_93
          Length = 93

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

                                 
Query: 65 atgtgttctcaggtcgcccctgc 87
          |||||||||||||||||||||||
Sbjct: 71 atgtgttctcaggtcgcccctgc 93


>osa-MIR398b_MI0001052_Oryza_sativa_miR398b_stem-loop_88
          Length = 88

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

                                
Query: 66 tgtgttctcaggtcgcccctgc 87
          ||||||||||||||||||||||
Sbjct: 58 tgtgttctcaggtcgcccctgc 79


>mtr-MIR398c_MI0005611_Medicago_truncatula_miR398c_stem-loop_87
          Length = 87

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

                                
Query: 66 tgtgttctcaggtcgcccctgc 87
          ||||||||||||||||||||||
Sbjct: 62 tgtgttctcaggtcgcccctgc 83


>bdi-MIR398c_MI0018228_Brachypodium_distachyon_miR398c_stem-loop_131
          Length = 131

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

                                 
Query: 65  atgtgttctcaggtcgcccctg 86
           ||||||||||||||||||||||
Sbjct: 86  atgtgttctcaggtcgcccctg 107


>bdi-MIR398a_MI0018116_Brachypodium_distachyon_miR398a_stem-loop_150
          Length = 150

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

                                 
Query: 65  atgtgttctcaggtcgcccctg 86
           ||||||||||||||||||||||
Sbjct: 95  atgtgttctcaggtcgcccctg 116


>sbi-MIR398_MI0013257_Sorghum_bicolor_miR398_stem-loop_109
          Length = 109

 Score = 40.1 bits (20), Expect = 1e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 65  atgtgttctcaggtcgcccc 84
           ||||||||||||||||||||
Sbjct: 87  atgtgttctcaggtcgcccc 106


>zma-MIR398a_MI0013231_Zea_mays_miR398a_stem-loop_140
          Length = 140

 Score = 40.1 bits (20), Expect = 1e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 65  atgtgttctcaggtcgcccc 84
           ||||||||||||||||||||
Sbjct: 118 atgtgttctcaggtcgcccc 137


>tae-MIR398_MI0016466_Triticum_aestivum_miR398_stem-loop_120
          Length = 120

 Score = 40.1 bits (20), Expect = 1e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 65  atgtgttctcaggtcgcccc 84
           ||||||||||||||||||||
Sbjct: 84  atgtgttctcaggtcgcccc 103


>zma-MIR398b_MI0013232_Zea_mays_miR398b_stem-loop_108
          Length = 108

 Score = 40.1 bits (20), Expect = 1e-04
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 65  atgtgttctcaggtcgcccc 84
           ||||||||||||||||||||
Sbjct: 86  atgtgttctcaggtcgcccc 105


>ath-MIR398b_MI0001018_Arabidopsis_thaliana_miR398b_stem-loop_116
          Length = 116

 Score = 38.2 bits (19), Expect = 5e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 65  atgtgttctcaggtcgcccctgc 87
           ||||||||||||||| |||||||
Sbjct: 85  atgtgttctcaggtcacccctgc 107


>aly-MIR398b_MI0014586_Arabidopsis_lyrata_miR398b_stem-loop_142
          Length = 142

 Score = 38.2 bits (19), Expect = 5e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 65  atgtgttctcaggtcgcccctgc 87
           ||||||||||||||| |||||||
Sbjct: 90  atgtgttctcaggtcacccctgc 112


>ath-MIR398c_MI0001019_Arabidopsis_thaliana_miR398c_stem-loop_115
          Length = 115

 Score = 38.2 bits (19), Expect = 5e-04
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 65  atgtgttctcaggtcgcccctgc 87
           ||||||||||||||| |||||||
Sbjct: 84  atgtgttctcaggtcacccctgc 106


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.