miRNA display CGI


Results 1 - 20 of 39 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7307 3' -56.6 NC_001900.1 + 18340 1.08 0.000577
Target:  5'- gAGCAAGGCCAAGGAACUGGCCAGCAGc -3'
miRNA:   3'- -UCGUUCCGGUUCCUUGACCGGUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 6614 0.8 0.066835
Target:  5'- uGGCuguAGGCCGguuggaugccguugAGGAucugGCUGGCCAGCGGg -3'
miRNA:   3'- -UCGu--UCCGGU--------------UCCU----UGACCGGUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 34536 0.75 0.164664
Target:  5'- cGGCGA-GCCGGGGAugUGGgaCAGCAGc -3'
miRNA:   3'- -UCGUUcCGGUUCCUugACCg-GUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 17747 0.74 0.183966
Target:  5'- cAGCAucguGCCGAGGGugUcGGCCAGCGu -3'
miRNA:   3'- -UCGUuc--CGGUUCCUugA-CCGGUCGUc -5'
7307 3' -56.6 NC_001900.1 + 37291 0.73 0.221968
Target:  5'- cAGCGGGGCC-AGGAACcucgucuUGGCCuGCu- -3'
miRNA:   3'- -UCGUUCCGGuUCCUUG-------ACCGGuCGuc -5'
7307 3' -56.6 NC_001900.1 + 32263 0.72 0.230452
Target:  5'- uGGCAugAGGCCGcggaugccgaaauccGGGAACUGGCaggggaauugcuuCGGCAGc -3'
miRNA:   3'- -UCGU--UCCGGU---------------UCCUUGACCG-------------GUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 23175 0.72 0.247585
Target:  5'- gAGCc-GGCCGAGcagaucgguGAGCUGGCCGGUAc -3'
miRNA:   3'- -UCGuuCCGGUUC---------CUUGACCGGUCGUc -5'
7307 3' -56.6 NC_001900.1 + 15349 0.72 0.247585
Target:  5'- uAGUAcAGGCCGAGcgacugcucaucGAACUGGUgCAGCAGg -3'
miRNA:   3'- -UCGU-UCCGGUUC------------CUUGACCG-GUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 43561 0.72 0.254194
Target:  5'- gAGCAGgcGGCgCAccGAGCUGGCCGGCc- -3'
miRNA:   3'- -UCGUU--CCG-GUucCUUGACCGGUCGuc -5'
7307 3' -56.6 NC_001900.1 + 41293 0.71 0.282081
Target:  5'- cGCAAGGCCAAcccGCUGcaCCAGCAGg -3'
miRNA:   3'- uCGUUCCGGUUccuUGACc-GGUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 13299 0.7 0.312339
Target:  5'- cGUuguGGGCCAAGGAGcCUGaGCCAGaAGu -3'
miRNA:   3'- uCGu--UCCGGUUCCUU-GAC-CGGUCgUC- -5'
7307 3' -56.6 NC_001900.1 + 15883 0.7 0.344996
Target:  5'- --gGAGGCCGAGGAGCUGGUgGaCGa -3'
miRNA:   3'- ucgUUCCGGUUCCUUGACCGgUcGUc -5'
7307 3' -56.6 NC_001900.1 + 312 0.69 0.362221
Target:  5'- cGGCccaacaAGGGCCGGGGAAUUGauCCGGCAa -3'
miRNA:   3'- -UCG------UUCCGGUUCCUUGACc-GGUCGUc -5'
7307 3' -56.6 NC_001900.1 + 8071 0.69 0.371055
Target:  5'- cGGCAAGGCCAAcGAA--GGCCAcGCGa -3'
miRNA:   3'- -UCGUUCCGGUUcCUUgaCCGGU-CGUc -5'
7307 3' -56.6 NC_001900.1 + 1247 0.69 0.380035
Target:  5'- uGGCGGcGGCagcGGAGCUGG-CGGCGGg -3'
miRNA:   3'- -UCGUU-CCGguuCCUUGACCgGUCGUC- -5'
7307 3' -56.6 NC_001900.1 + 42186 0.68 0.407831
Target:  5'- uGCAcgaaauGGCCAGGGAGaCUGGCUcuuGCGu -3'
miRNA:   3'- uCGUu-----CCGGUUCCUU-GACCGGu--CGUc -5'
7307 3' -56.6 NC_001900.1 + 46845 0.68 0.417376
Target:  5'- cGCAcGGCCGucGGGAACUGuGCCuugccuucGGCGa -3'
miRNA:   3'- uCGUuCCGGU--UCCUUGAC-CGG--------UCGUc -5'
7307 3' -56.6 NC_001900.1 + 29814 0.68 0.436866
Target:  5'- cGGUggGGCCAAcacGgUGGCCgAGCAGa -3'
miRNA:   3'- -UCGuuCCGGUUccuUgACCGG-UCGUC- -5'
7307 3' -56.6 NC_001900.1 + 17915 0.68 0.446806
Target:  5'- gGGCAgguacGGGCCGAGcGAGgUGaCCAGCGu -3'
miRNA:   3'- -UCGU-----UCCGGUUC-CUUgACcGGUCGUc -5'
7307 3' -56.6 NC_001900.1 + 17146 0.68 0.456869
Target:  5'- gGGUGAGGCCAGucuGGAACgucgaGGagaCGGCGGu -3'
miRNA:   3'- -UCGUUCCGGUU---CCUUGa----CCg--GUCGUC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.