miRNA display CGI


Results 21 - 38 of 38 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
28907 3' -58.1 NC_006146.1 + 114567 0.67 0.754256
Target:  5'- uGCUCCGGGCGGCCuccuucUCGCGg- -3'
miRNA:   3'- gUGAGGUCCGUCGGucccu-AGCGUac -5'
28907 3' -58.1 NC_006146.1 + 108414 0.67 0.744701
Target:  5'- cCugUCCGucugacguGGCGGCCAGGuGGaCGCAg- -3'
miRNA:   3'- -GugAGGU--------CCGUCGGUCC-CUaGCGUac -5'
28907 3' -58.1 NC_006146.1 + 47663 0.67 0.744701
Target:  5'- gGC-CCAgcgcGGCGGCCAGGGucUCGUggAUGg -3'
miRNA:   3'- gUGaGGU----CCGUCGGUCCCu-AGCG--UAC- -5'
28907 3' -58.1 NC_006146.1 + 105861 0.68 0.73505
Target:  5'- aGCUCgAGGaAGCCGGGGAg-GCAa- -3'
miRNA:   3'- gUGAGgUCCgUCGGUCCCUagCGUac -5'
28907 3' -58.1 NC_006146.1 + 116041 0.69 0.685656
Target:  5'- -cCUCCAcGGCccgcuGCUGGGGAUggCGCAUGa -3'
miRNA:   3'- guGAGGU-CCGu----CGGUCCCUA--GCGUAC- -5'
28907 3' -58.1 NC_006146.1 + 5083 0.69 0.655428
Target:  5'- gGCgUCCAcGCGGCCAGGGA-CGCc-- -3'
miRNA:   3'- gUG-AGGUcCGUCGGUCCCUaGCGuac -5'
28907 3' -58.1 NC_006146.1 + 153300 0.69 0.645303
Target:  5'- uGCUCCAGGCA-CCAGGcccgggccaGGUCGCc-- -3'
miRNA:   3'- gUGAGGUCCGUcGGUCC---------CUAGCGuac -5'
28907 3' -58.1 NC_006146.1 + 33097 0.69 0.63517
Target:  5'- gGCUCUgGGGCAGCCGGGuGGcCGCcgGc -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 52700 0.7 0.625033
Target:  5'- aGCUCCGGGCgggaGGUCAGGGggCgGCcgGc -3'
miRNA:   3'- gUGAGGUCCG----UCGGUCCCuaG-CGuaC- -5'
28907 3' -58.1 NC_006146.1 + 149825 0.7 0.592669
Target:  5'- gGCUCCgggugguguGGGCGGCCAGGGccucggcgaagCGCAg- -3'
miRNA:   3'- gUGAGG---------UCCGUCGGUCCCua---------GCGUac -5'
28907 3' -58.1 NC_006146.1 + 102838 0.7 0.583609
Target:  5'- gACUCCAccccccuguuGGCAGCCAGGGcagccgccaccugGUCGUg-- -3'
miRNA:   3'- gUGAGGU----------CCGUCGGUCCC-------------UAGCGuac -5'
28907 3' -58.1 NC_006146.1 + 77930 0.71 0.5154
Target:  5'- -cCUCgCAGGU-GCCGGGGGUCGCuguuUGg -3'
miRNA:   3'- guGAG-GUCCGuCGGUCCCUAGCGu---AC- -5'
28907 3' -58.1 NC_006146.1 + 51637 0.72 0.481088
Target:  5'- uGCUCCAGGCucuggacucccagggGGCCAGGGccggUGCcgGg -3'
miRNA:   3'- gUGAGGUCCG---------------UCGGUCCCua--GCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 33221 0.74 0.380707
Target:  5'- uGCUCCgGGGCAGCCGGGuGGcCGCcgGc -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 33343 0.74 0.36459
Target:  5'- uGCUCCgGGGCAGCCGGGuGGcCGCcgGu -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 131488 0.75 0.341312
Target:  5'- gGgUCUGGGguGCCAGGGAUCGaCcgGg -3'
miRNA:   3'- gUgAGGUCCguCGGUCCCUAGC-GuaC- -5'
28907 3' -58.1 NC_006146.1 + 47604 0.76 0.284597
Target:  5'- cCACUCgGcGGCcGCCAGGGAUCGCc-- -3'
miRNA:   3'- -GUGAGgU-CCGuCGGUCCCUAGCGuac -5'
28907 3' -58.1 NC_006146.1 + 18642 1.07 0.002548
Target:  5'- gCACUCCAGGCAGCCAGGGAUCGCAUGc -3'
miRNA:   3'- -GUGAGGUCCGUCGGUCCCUAGCGUAC- -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.