miRNA display CGI


Results 1 - 19 of 19 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
7012 3' -56.8 NC_001875.2 + 98919 0.66 0.871117
Target:  5'- aGCU---CGCGGCGCCGGUUgcgCGUGc- -3'
miRNA:   3'- -CGAccuGUGCUGCGGCCAGa--GCACuu -5'
7012 3' -56.8 NC_001875.2 + 111078 0.66 0.871117
Target:  5'- -gUGGA--CGACGCCGGcgC-CGUGAAa -3'
miRNA:   3'- cgACCUguGCUGCGGCCa-GaGCACUU- -5'
7012 3' -56.8 NC_001875.2 + 19785 0.66 0.871117
Target:  5'- uGCUGGAagACGACGC-GGcCgaCGUGAAa -3'
miRNA:   3'- -CGACCUg-UGCUGCGgCCaGa-GCACUU- -5'
7012 3' -56.8 NC_001875.2 + 62349 0.66 0.863646
Target:  5'- -gUGGGCGCGGCGCCaguuugGGUCgcgCGccagGGAg -3'
miRNA:   3'- cgACCUGUGCUGCGG------CCAGa--GCa---CUU- -5'
7012 3' -56.8 NC_001875.2 + 90729 0.66 0.861363
Target:  5'- cGCUGGcACACGACGCCGuugaaugccgauccGUCggagGAGu -3'
miRNA:   3'- -CGACC-UGUGCUGCGGC--------------CAGagcaCUU- -5'
7012 3' -56.8 NC_001875.2 + 18683 0.66 0.855964
Target:  5'- uGCUGGGCgaaacguacaagGCGGCGCUGGUgcaCUCcaUGAAc -3'
miRNA:   3'- -CGACCUG------------UGCUGCGGCCA---GAGc-ACUU- -5'
7012 3' -56.8 NC_001875.2 + 3150 0.66 0.855964
Target:  5'- cGC-GGACGCGGCGUCGGgcggcgagUagGUGAGc -3'
miRNA:   3'- -CGaCCUGUGCUGCGGCCa-------GagCACUU- -5'
7012 3' -56.8 NC_001875.2 + 111489 0.66 0.855964
Target:  5'- uGCUGGACGCGGaGC-GG-CUgGUGAu -3'
miRNA:   3'- -CGACCUGUGCUgCGgCCaGAgCACUu -5'
7012 3' -56.8 NC_001875.2 + 59630 0.66 0.848079
Target:  5'- gGC-GGACgccGCGuCGCUGG-CUCGUGGg -3'
miRNA:   3'- -CGaCCUG---UGCuGCGGCCaGAGCACUu -5'
7012 3' -56.8 NC_001875.2 + 36467 0.67 0.787789
Target:  5'- aUUGGACACGACGCCGuUUUCc---- -3'
miRNA:   3'- cGACCUGUGCUGCGGCcAGAGcacuu -5'
7012 3' -56.8 NC_001875.2 + 75410 0.68 0.750057
Target:  5'- cGUUGGugAUGGCGUCGGcgUUgGUGAu -3'
miRNA:   3'- -CGACCugUGCUGCGGCCa-GAgCACUu -5'
7012 3' -56.8 NC_001875.2 + 130918 0.68 0.727569
Target:  5'- -aUGGACGCGGCccugcagucguuaaGCCGG-UUCGUGGc -3'
miRNA:   3'- cgACCUGUGCUG--------------CGGCCaGAGCACUu -5'
7012 3' -56.8 NC_001875.2 + 3510 0.69 0.710659
Target:  5'- --aGGACGCGACccgauaagGCCGGcCUaCGUGAc -3'
miRNA:   3'- cgaCCUGUGCUG--------CGGCCaGA-GCACUu -5'
7012 3' -56.8 NC_001875.2 + 90029 0.7 0.618957
Target:  5'- aCUGGcCGCGGCGCCGG-CgcgCGUGc- -3'
miRNA:   3'- cGACCuGUGCUGCGGCCaGa--GCACuu -5'
7012 3' -56.8 NC_001875.2 + 11093 0.71 0.567965
Target:  5'- cCUGGACACGGcCGCC-GUCUCGg--- -3'
miRNA:   3'- cGACCUGUGCU-GCGGcCAGAGCacuu -5'
7012 3' -56.8 NC_001875.2 + 16069 0.73 0.460716
Target:  5'- cGCUGuGgacgcACACGGCGCCGGUUUCGg--- -3'
miRNA:   3'- -CGAC-C-----UGUGCUGCGGCCAGAGCacuu -5'
7012 3' -56.8 NC_001875.2 + 57235 0.74 0.398295
Target:  5'- --cGGGCGCGAUGuuGGUCgucagCGUGGAg -3'
miRNA:   3'- cgaCCUGUGCUGCggCCAGa----GCACUU- -5'
7012 3' -56.8 NC_001875.2 + 87839 0.78 0.246329
Target:  5'- cGCUGGGCACGGCGCCcGUCgggcugucCGUGGc -3'
miRNA:   3'- -CGACCUGUGCUGCGGcCAGa-------GCACUu -5'
7012 3' -56.8 NC_001875.2 + 114115 1.08 0.002534
Target:  5'- gGCUGGACACGACGCCGGUCUCGUGAAa -3'
miRNA:   3'- -CGACCUGUGCUGCGGCCAGAGCACUU- -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.