miRNA display CGI


Results 1 - 20 of 52 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
18387 3' -62.6 NC_004681.1 + 61659 0.66 0.405845
Target:  5'- --cGCGCagaagCCGCCgCCGCggaGgCCGCCGCc -3'
miRNA:   3'- aauUGUG-----GGCGG-GGCGa--CgGGCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 23683 0.66 0.40409
Target:  5'- --cGCGCCCGCCuCCGCggacauagagugGCCCGg--- -3'
miRNA:   3'- aauUGUGGGCGG-GGCGa-----------CGGGCggug -5'
18387 3' -62.6 NC_004681.1 + 49450 0.66 0.397121
Target:  5'- --uGCGCCCaguggucaGCgCCCGCgGCgCCGCCGu -3'
miRNA:   3'- aauUGUGGG--------CG-GGGCGaCG-GGCGGUg -5'
18387 3' -62.6 NC_004681.1 + 28928 0.66 0.397121
Target:  5'- ----aGCCCGUgCCUGC-GCCUGCCAg -3'
miRNA:   3'- aauugUGGGCG-GGGCGaCGGGCGGUg -5'
18387 3' -62.6 NC_004681.1 + 49254 0.66 0.397121
Target:  5'- ---gUACUCGCUgucgCCGCUGCCauCGUCACg -3'
miRNA:   3'- aauuGUGGGCGG----GGCGACGG--GCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 18487 0.66 0.397121
Target:  5'- uUUGcCGCCgCgGCCgCCGCcugGCCUGCCAUg -3'
miRNA:   3'- -AAUuGUGG-G-CGG-GGCGa--CGGGCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 39782 0.66 0.397121
Target:  5'- ---uCGCCCGCCgCGCgaccaucGCCUcCCACg -3'
miRNA:   3'- aauuGUGGGCGGgGCGa------CGGGcGGUG- -5'
18387 3' -62.6 NC_004681.1 + 46830 0.66 0.397121
Target:  5'- -aGACGCa-GCCCCGCgGCaaCCGCCcCg -3'
miRNA:   3'- aaUUGUGggCGGGGCGaCG--GGCGGuG- -5'
18387 3' -62.6 NC_004681.1 + 3032 0.66 0.388519
Target:  5'- -cAAUGCCCGCaCCCGCggcGCCaaggGCCu- -3'
miRNA:   3'- aaUUGUGGGCG-GGGCGa--CGGg---CGGug -5'
18387 3' -62.6 NC_004681.1 + 36768 0.66 0.388519
Target:  5'- -cAGCGCguCUGCCaggCCGCUgGCCCGCCc- -3'
miRNA:   3'- aaUUGUG--GGCGG---GGCGA-CGGGCGGug -5'
18387 3' -62.6 NC_004681.1 + 25083 0.66 0.388519
Target:  5'- -cGACGCCUGUgCCGCcagagccCCCGUCGCc -3'
miRNA:   3'- aaUUGUGGGCGgGGCGac-----GGGCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 53612 0.66 0.388519
Target:  5'- cUUGACGCCCGCgaugucaCCGCgGUCaugggUGCCACu -3'
miRNA:   3'- -AAUUGUGGGCGg------GGCGaCGG-----GCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 53808 0.66 0.380041
Target:  5'- ---uCACCCaCCUCGCcauccUGCUCGCCAUu -3'
miRNA:   3'- aauuGUGGGcGGGGCG-----ACGGGCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 50820 0.66 0.371687
Target:  5'- gUGAC-CCCGCCcaCCGCcacccaGCUCGCCGa -3'
miRNA:   3'- aAUUGuGGGCGG--GGCGa-----CGGGCGGUg -5'
18387 3' -62.6 NC_004681.1 + 44117 0.66 0.371687
Target:  5'- -aGGCACCUGCCucacccccgaggCCGCgggccugGCCCucaccgGCCGCg -3'
miRNA:   3'- aaUUGUGGGCGG------------GGCGa------CGGG------CGGUG- -5'
18387 3' -62.6 NC_004681.1 + 57920 0.66 0.371687
Target:  5'- -aGGgGCCaGCCCCGCU-CCuuCGCCACc -3'
miRNA:   3'- aaUUgUGGgCGGGGCGAcGG--GCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 28044 0.66 0.363459
Target:  5'- gUGACGCCagugauGCCacagCCGUUGCCgUGCCGCc -3'
miRNA:   3'- aAUUGUGGg-----CGG----GGCGACGG-GCGGUG- -5'
18387 3' -62.6 NC_004681.1 + 59687 0.66 0.363459
Target:  5'- -cAGCGCCgccaCGCCCCcugcugggaguGCgGCCUGCCAa -3'
miRNA:   3'- aaUUGUGG----GCGGGG-----------CGaCGGGCGGUg -5'
18387 3' -62.6 NC_004681.1 + 68700 0.67 0.350559
Target:  5'- ----gGCCUGCUCCGCUccuacgaggacuaugGCCCGCUg- -3'
miRNA:   3'- aauugUGGGCGGGGCGA---------------CGGGCGGug -5'
18387 3' -62.6 NC_004681.1 + 33045 0.67 0.347385
Target:  5'- -aAGCACCCGCCgCCGaugaaGUCCuucagcgauGCCGCa -3'
miRNA:   3'- aaUUGUGGGCGG-GGCga---CGGG---------CGGUG- -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.