miRNA display CGI


Results 1 - 20 of 21 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
5468 5' -57.7 NC_001798.1 + 43060 0.66 0.826804
Target:  5'- -cGUGaGCCGCcggcCGAGCGcGcCGGGCu -3'
miRNA:   3'- aaCACaCGGCGaa--GCUCGCuC-GCCUG- -5'
5468 5' -57.7 NC_001798.1 + 37865 0.66 0.82169
Target:  5'- ---cGUGCCGCUUgagcuuauaGAGCGAagguguuguagggccGCGGAUg -3'
miRNA:   3'- aacaCACGGCGAAg--------CUCGCU---------------CGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 60988 0.66 0.818246
Target:  5'- --uUGUGUCGCaggCgGAGgGGGCGGAUg -3'
miRNA:   3'- aacACACGGCGaa-G-CUCgCUCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 26792 0.66 0.809517
Target:  5'- cUUGUGUGguuuauUCGggggUCGGGCGGGCGGGg -3'
miRNA:   3'- -AACACAC------GGCga--AGCUCGCUCGCCUg -5'
5468 5' -57.7 NC_001798.1 + 25631 0.66 0.809517
Target:  5'- -aGUG-GuCCGC--CGAGCGcGGCGGGCu -3'
miRNA:   3'- aaCACaC-GGCGaaGCUCGC-UCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 80426 0.66 0.800627
Target:  5'- aUGUGUcugccgagcGCCGCUUUGGccGCGcuGUGGACc -3'
miRNA:   3'- aACACA---------CGGCGAAGCU--CGCu-CGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 85197 0.66 0.79973
Target:  5'- ---cGUGCCGCccgCGAGCGcGCucgacgaGGACg -3'
miRNA:   3'- aacaCACGGCGaa-GCUCGCuCG-------CCUG- -5'
5468 5' -57.7 NC_001798.1 + 95301 0.67 0.754055
Target:  5'- uUUGUGUG-CGCggcgUCGAGUcucggGGGCGGGg -3'
miRNA:   3'- -AACACACgGCGa---AGCUCG-----CUCGCCUg -5'
5468 5' -57.7 NC_001798.1 + 69482 0.67 0.734606
Target:  5'- -----cGUCGCggCGAGCGAuggGCGGGCg -3'
miRNA:   3'- aacacaCGGCGaaGCUCGCU---CGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 123515 0.68 0.714799
Target:  5'- -cGUGUGgCGCgUCGuuCGGGgGGACg -3'
miRNA:   3'- aaCACACgGCGaAGCucGCUCgCCUG- -5'
5468 5' -57.7 NC_001798.1 + 30930 0.68 0.704784
Target:  5'- -gGUGaggGCgGCgggggUCGGGCGgggGGCGGGCg -3'
miRNA:   3'- aaCACa--CGgCGa----AGCUCGC---UCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 26513 0.68 0.684579
Target:  5'- -gGUGcugGCCGCggCGGGCG-GCGG-Cg -3'
miRNA:   3'- aaCACa--CGGCGaaGCUCGCuCGCCuG- -5'
5468 5' -57.7 NC_001798.1 + 83656 0.69 0.663177
Target:  5'- --aUGUGCgGCUcgCGGGCGucugggaugcacuGGCGGGCg -3'
miRNA:   3'- aacACACGgCGAa-GCUCGC-------------UCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 72437 0.69 0.643715
Target:  5'- uUUGaGUGCCGgUUCGAgaGCGA-CGGGCa -3'
miRNA:   3'- -AACaCACGGCgAAGCU--CGCUcGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 106680 0.7 0.6027
Target:  5'- -gGUcagGCUGC-UCGuGCGAGCGGGCc -3'
miRNA:   3'- aaCAca-CGGCGaAGCuCGCUCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 70607 0.7 0.592483
Target:  5'- -aGUGUGCCGUggaguggaUCGAccGCuGGCGGACc -3'
miRNA:   3'- aaCACACGGCGa-------AGCU--CGcUCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 38178 0.7 0.592483
Target:  5'- -aGUGgaugggGCCGCUggUCGAGCaGGaggcGCGGACu -3'
miRNA:   3'- aaCACa-----CGGCGA--AGCUCG-CU----CGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 86468 0.7 0.582294
Target:  5'- -cGUGaGCCuGCUUCGGGCc-GCGGGCc -3'
miRNA:   3'- aaCACaCGG-CGAAGCUCGcuCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 16057 0.71 0.522143
Target:  5'- -cGUGguagGUCGCUggGGGCG-GCGGGCg -3'
miRNA:   3'- aaCACa---CGGCGAagCUCGCuCGCCUG- -5'
5468 5' -57.7 NC_001798.1 + 97226 0.71 0.521158
Target:  5'- -gGUG-GCCGUggagcuggcgcugUUCGGGCG-GCGGGCg -3'
miRNA:   3'- aaCACaCGGCG-------------AAGCUCGCuCGCCUG- -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.