miRNA display CGI


Results 1 - 15 of 15 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
28409 5' -58.3 NC_005946.1 + 73948 0.66 0.699015
Target:  5'- aCCAGGaCAGAGggGUCaCCUCUUccGGg -3'
miRNA:   3'- cGGUCCgGUCUCaaCAG-GGAGGA--CCg -5'
28409 5' -58.3 NC_005946.1 + 1839 0.67 0.687801
Target:  5'- cCCAGGCCGGugcacaacaggaaGGUaaUGUUCUUUgUGGCc -3'
miRNA:   3'- cGGUCCGGUC-------------UCA--ACAGGGAGgACCG- -5'
28409 5' -58.3 NC_005946.1 + 104405 0.67 0.678583
Target:  5'- gGCgCAGGCCcu-GUUGUCUaCUCCcacGGCg -3'
miRNA:   3'- -CG-GUCCGGucuCAACAGG-GAGGa--CCG- -5'
28409 5' -58.3 NC_005946.1 + 63767 0.67 0.678583
Target:  5'- uGCCAcGGCCAgGAGccacGaCCCUCCUccccuggaGGCg -3'
miRNA:   3'- -CGGU-CCGGU-CUCaa--CaGGGAGGA--------CCG- -5'
28409 5' -58.3 NC_005946.1 + 78981 0.67 0.678583
Target:  5'- cGCCAgGGCCGGGGg---CCacagggCUUGGCg -3'
miRNA:   3'- -CGGU-CCGGUCUCaacaGGga----GGACCG- -5'
28409 5' -58.3 NC_005946.1 + 75131 0.67 0.657994
Target:  5'- gGCCAGGCCGGAccUGggagccaCCCUgCCguagaGGCc -3'
miRNA:   3'- -CGGUCCGGUCUcaACa------GGGA-GGa----CCG- -5'
28409 5' -58.3 NC_005946.1 + 71840 0.68 0.624904
Target:  5'- gGCCcgcGGGCCAGAGgacgggaggagGUCCCgcgggaCUGuGCg -3'
miRNA:   3'- -CGG---UCCGGUCUCaa---------CAGGGag----GAC-CG- -5'
28409 5' -58.3 NC_005946.1 + 25818 0.68 0.584676
Target:  5'- aGgCAGcCCAGAGUUGUCCCcgucacgUCCUcGGa -3'
miRNA:   3'- -CgGUCcGGUCUCAACAGGG-------AGGA-CCg -5'
28409 5' -58.3 NC_005946.1 + 69632 0.69 0.56219
Target:  5'- aGUCAGGUCAGcccAGggGUCCCUguccuccaggagggCCUGaGCu -3'
miRNA:   3'- -CGGUCCGGUC---UCaaCAGGGA--------------GGAC-CG- -5'
28409 5' -58.3 NC_005946.1 + 10676 0.69 0.544976
Target:  5'- -gCAGGuCCAGGag-GUCCCUCCUGa- -3'
miRNA:   3'- cgGUCC-GGUCUcaaCAGGGAGGACcg -5'
28409 5' -58.3 NC_005946.1 + 11139 0.69 0.51504
Target:  5'- aGCCGGGUaCAG-GUUGUCCC-CCacGCa -3'
miRNA:   3'- -CGGUCCG-GUCuCAACAGGGaGGacCG- -5'
28409 5' -58.3 NC_005946.1 + 27914 0.71 0.420885
Target:  5'- cGCCuggcauccucuuGGGCCucaugaccggAGAGUUGUCCgggugCCUGGCc -3'
miRNA:   3'- -CGG------------UCCGG----------UCUCAACAGGga---GGACCG- -5'
28409 5' -58.3 NC_005946.1 + 34564 0.73 0.315426
Target:  5'- ---cGGCCAGGGccuuccUGUCCCUCCaGGCc -3'
miRNA:   3'- cgguCCGGUCUCa-----ACAGGGAGGaCCG- -5'
28409 5' -58.3 NC_005946.1 + 77546 0.74 0.28053
Target:  5'- cCCGGGCUAGccagGUCCCUCCUuagGGCc -3'
miRNA:   3'- cGGUCCGGUCucaaCAGGGAGGA---CCG- -5'
28409 5' -58.3 NC_005946.1 + 69566 1.12 0.000657
Target:  5'- aGCCAGGCCAGAGUUGUCCCUCCUGGCc -3'
miRNA:   3'- -CGGUCCGGUCUCAACAGGGAGGACCG- -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.