miRNA display CGI


Results 1 - 20 of 34 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
15791 3' -56.8 NC_004065.1 + 149533 0.66 0.955346
Target:  5'- -aCUCUUgcucccagaGACGCgacagGCgCUCGUCCGAc -3'
miRNA:   3'- cgGAGAG---------CUGCGaa---CG-GAGCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 177793 0.66 0.951534
Target:  5'- cGCCUCUgGgGCGCUUgGUUUCGUagCCGGu -3'
miRNA:   3'- -CGGAGAgC-UGCGAA-CGGAGCA--GGCUc -5'
15791 3' -56.8 NC_004065.1 + 107661 0.66 0.951534
Target:  5'- aCCUCUCcuccgagguGACGCUgGCCUaCGUgCGGa -3'
miRNA:   3'- cGGAGAG---------CUGCGAaCGGA-GCAgGCUc -5'
15791 3' -56.8 NC_004065.1 + 212134 0.66 0.951534
Target:  5'- aGUCUCUCGACGg--GCgUCcGUCCGc- -3'
miRNA:   3'- -CGGAGAGCUGCgaaCGgAG-CAGGCuc -5'
15791 3' -56.8 NC_004065.1 + 191618 0.66 0.951534
Target:  5'- -gCUCUCGACGUUgauaccgGCCUCGaaaucgCCGc- -3'
miRNA:   3'- cgGAGAGCUGCGAa------CGGAGCa-----GGCuc -5'
15791 3' -56.8 NC_004065.1 + 111242 0.66 0.947509
Target:  5'- aCCUCacgcUCGAuCGCcucUGCCUCGUcggcgccgugaCCGAGa -3'
miRNA:   3'- cGGAG----AGCU-GCGa--ACGGAGCA-----------GGCUC- -5'
15791 3' -56.8 NC_004065.1 + 91756 0.66 0.947509
Target:  5'- aCCUgUUGACGUccGCCUCGgacacCCGAc -3'
miRNA:   3'- cGGAgAGCUGCGaaCGGAGCa----GGCUc -5'
15791 3' -56.8 NC_004065.1 + 59656 0.66 0.938813
Target:  5'- aGCCggUCUCGGaGCacGCCaccucguccucgUCGUCCGAGu -3'
miRNA:   3'- -CGG--AGAGCUgCGaaCGG------------AGCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 94472 0.66 0.938813
Target:  5'- cGCCUCccCGuCGUccGCC-CGUCCGAc -3'
miRNA:   3'- -CGGAGa-GCuGCGaaCGGaGCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 99253 0.66 0.93509
Target:  5'- cGCCugcagguUCUCGACGUcgucgucguccuccuCCUCGUCCGAu -3'
miRNA:   3'- -CGG-------AGAGCUGCGaac------------GGAGCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 64363 0.66 0.934138
Target:  5'- uCCUCUCGGauCGCguccUGCaggCUCuGUCCGAGc -3'
miRNA:   3'- cGGAGAGCU--GCGa---ACG---GAG-CAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 132433 0.67 0.929242
Target:  5'- gGCCUCcuUCGACGUgUUGCgC-CGUCCGc- -3'
miRNA:   3'- -CGGAG--AGCUGCG-AACG-GaGCAGGCuc -5'
15791 3' -56.8 NC_004065.1 + 26196 0.67 0.929242
Target:  5'- cCCUUUCGAC-CUcgaacGCCU-GUCCGAGa -3'
miRNA:   3'- cGGAGAGCUGcGAa----CGGAgCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 188986 0.67 0.924127
Target:  5'- gGCCgUUUUGGCGCagGCCUCGaUCgGAu -3'
miRNA:   3'- -CGG-AGAGCUGCGaaCGGAGC-AGgCUc -5'
15791 3' -56.8 NC_004065.1 + 191248 0.67 0.924127
Target:  5'- cGCCgaCUUGAUGUgauccaGCCUCGUCuCGAa -3'
miRNA:   3'- -CGGa-GAGCUGCGaa----CGGAGCAG-GCUc -5'
15791 3' -56.8 NC_004065.1 + 143649 0.67 0.918791
Target:  5'- uCCUCggggCGACGCgugGaCCUCGggaCCGAa -3'
miRNA:   3'- cGGAGa---GCUGCGaa-C-GGAGCa--GGCUc -5'
15791 3' -56.8 NC_004065.1 + 52733 0.67 0.913236
Target:  5'- aCCaCUUGcACGgUgggagaaagUGCCUCGUCCGAGu -3'
miRNA:   3'- cGGaGAGC-UGCgA---------ACGGAGCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 100020 0.67 0.907462
Target:  5'- cGCCggCUCGuCGC-UGCCUCGgggcgguauccUCCGcAGa -3'
miRNA:   3'- -CGGa-GAGCuGCGaACGGAGC-----------AGGC-UC- -5'
15791 3' -56.8 NC_004065.1 + 99664 0.68 0.888849
Target:  5'- aGCCgg-CGGCGCggcGCCgacagCGUCCGGu -3'
miRNA:   3'- -CGGagaGCUGCGaa-CGGa----GCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 211670 0.68 0.888849
Target:  5'- gGCCUCUuuUGA-GCcUGCCUCGcuUUCGAGg -3'
miRNA:   3'- -CGGAGA--GCUgCGaACGGAGC--AGGCUC- -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.