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
28462 3' -52.9 NC_005946.1 + 57242 0.66 0.954597
Target:  5'- ---aCAgCUCCUgc-GCG-CAGGCCCc -3'
miRNA:   3'- cggaGUgGAGGAauuUGCaGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 96343 0.66 0.950407
Target:  5'- uCCUCACCgucUCCUcGGGCcucuccGUCAGGCa- -3'
miRNA:   3'- cGGAGUGG---AGGAaUUUG------CAGUCCGgg -5'
28462 3' -52.9 NC_005946.1 + 97359 0.66 0.950407
Target:  5'- cGUC-CACCUCCagGGugcCGUCuGGaCCCa -3'
miRNA:   3'- -CGGaGUGGAGGaaUUu--GCAGuCC-GGG- -5'
28462 3' -52.9 NC_005946.1 + 3568 0.66 0.949974
Target:  5'- gGUCUCGCCguggaggUCCgugUAGaccACGUCcacgccgugcaGGGCCCc -3'
miRNA:   3'- -CGGAGUGG-------AGGa--AUU---UGCAG-----------UCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 42074 0.66 0.941274
Target:  5'- gGCCU--UCUCCUU--ACcaCAGGCCCu -3'
miRNA:   3'- -CGGAguGGAGGAAuuUGcaGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 61179 0.66 0.936325
Target:  5'- uGCCUCuccccUCUCCUU-GGCua-GGGCCCu -3'
miRNA:   3'- -CGGAGu----GGAGGAAuUUGcagUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 10516 0.67 0.931117
Target:  5'- gGCCaagACCgUCagggGGAcCGUCAGGCCCa -3'
miRNA:   3'- -CGGag-UGG-AGgaa-UUU-GCAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 34722 0.67 0.931117
Target:  5'- cGCuCUCACCaggcagCCcguGGCGggCAGGUCCa -3'
miRNA:   3'- -CG-GAGUGGa-----GGaauUUGCa-GUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 72801 0.67 0.931117
Target:  5'- gGCCUCAUCUCCUUcauuGCaccgUAGGCa- -3'
miRNA:   3'- -CGGAGUGGAGGAAuu--UGca--GUCCGgg -5'
28462 3' -52.9 NC_005946.1 + 16724 0.67 0.925651
Target:  5'- aGCCUCugCUCgcacauCcUCAGGCUCg -3'
miRNA:   3'- -CGGAGugGAGgaauuuGcAGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 26537 0.67 0.925651
Target:  5'- uGCCgUCuGCCUCCUguucaugcccaugggGAugGUCGaggggucagagucGGCCCu -3'
miRNA:   3'- -CGG-AG-UGGAGGAa--------------UUugCAGU-------------CCGGG- -5'
28462 3' -52.9 NC_005946.1 + 32393 0.67 0.919926
Target:  5'- gGCCaagCACgUCCcc-GACGgCAGGUCCg -3'
miRNA:   3'- -CGGa--GUGgAGGaauUUGCaGUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 84962 0.67 0.919926
Target:  5'- aCCUgGCCUCCcagUAcGACGUgcucggaggcaAGGCCCa -3'
miRNA:   3'- cGGAgUGGAGGa--AU-UUGCAg----------UCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 69222 0.67 0.919926
Target:  5'- aGCCUC-UCUCCU--GACGggccUGGGCUCg -3'
miRNA:   3'- -CGGAGuGGAGGAauUUGCa---GUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 36969 0.67 0.913942
Target:  5'- uCCUCAgCaUCCuUUGAGCGUCAaGGaCCg -3'
miRNA:   3'- cGGAGUgG-AGG-AAUUUGCAGU-CCgGG- -5'
28462 3' -52.9 NC_005946.1 + 78439 0.67 0.907063
Target:  5'- uGCCUCaugaggaGCCUCCU-----GagGGGCCCg -3'
miRNA:   3'- -CGGAG-------UGGAGGAauuugCagUCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 19173 0.68 0.901206
Target:  5'- cCCUCuccuggauauaGCCUCCcUGAGCGg-AGGCCa -3'
miRNA:   3'- cGGAG-----------UGGAGGaAUUUGCagUCCGGg -5'
28462 3' -52.9 NC_005946.1 + 74136 0.68 0.897187
Target:  5'- cGCCcCACgUCUUgacgacguuugUAAACGUCuccacccuaaaguugGGGCCCa -3'
miRNA:   3'- -CGGaGUGgAGGA-----------AUUUGCAG---------------UCCGGG- -5'
28462 3' -52.9 NC_005946.1 + 83825 0.68 0.894458
Target:  5'- cCCUC-CC-CCUUGAugGUCcugccGGUCCu -3'
miRNA:   3'- cGGAGuGGaGGAAUUugCAGu----CCGGG- -5'
28462 3' -52.9 NC_005946.1 + 57496 0.68 0.880222
Target:  5'- uGCCUCcugGCCUCCgcauugccAGugGUgUAGGCCg -3'
miRNA:   3'- -CGGAG---UGGAGGaa------UUugCA-GUCCGGg -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.