miRNA display CGI


Results 1 - 20 of 28 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
8083 3' -55.3 NC_001978.2 + 32628 0.66 0.630291
Target:  5'- cAGCGcCGUCGUGgcaaGAACaUUGACCu -3'
miRNA:   3'- uUCGCuGCAGCGCag--CUUG-AGCUGGu -5'
8083 3' -55.3 NC_001978.2 + 19583 0.66 0.652701
Target:  5'- cGGCGcCGgucagcucCGUGUCGAACgucCGGCCGu -3'
miRNA:   3'- uUCGCuGCa-------GCGCAGCUUGa--GCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 17859 0.66 0.663881
Target:  5'- -cGCGGCauaguuggucguGUCgGCGUCGGACcaauUCGGCCc -3'
miRNA:   3'- uuCGCUG------------CAG-CGCAGCUUG----AGCUGGu -5'
8083 3' -55.3 NC_001978.2 + 8658 0.66 0.663881
Target:  5'- --cCGACGUCG-G-CGGGCUCGAUCu -3'
miRNA:   3'- uucGCUGCAGCgCaGCUUGAGCUGGu -5'
8083 3' -55.3 NC_001978.2 + 20382 0.66 0.645982
Target:  5'- gAAGCGGCGaaggccgaagucgagUCGCGcCGG--UCGGCCGa -3'
miRNA:   3'- -UUCGCUGC---------------AGCGCaGCUugAGCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 22738 0.66 0.640379
Target:  5'- cGGCGucguguuCGUCGCugccgucGUCGGGCUCGcCCu -3'
miRNA:   3'- uUCGCu------GCAGCG-------CAGCUUGAGCuGGu -5'
8083 3' -55.3 NC_001978.2 + 1030 0.66 0.634775
Target:  5'- cAAGCGGCGUCGgcaacggccaUGUCGAGCguguaguaacccggCGugCGg -3'
miRNA:   3'- -UUCGCUGCAGC----------GCAGCUUGa-------------GCugGU- -5'
8083 3' -55.3 NC_001978.2 + 23642 0.67 0.545852
Target:  5'- gAAGaCGACGUugagCGCGUCGGcaaggguggcgcuguGCUCG-CCAa -3'
miRNA:   3'- -UUC-GCUGCA----GCGCAGCU---------------UGAGCuGGU- -5'
8083 3' -55.3 NC_001978.2 + 4545 0.67 0.574468
Target:  5'- -cGCGACGUCGC--UGAGCUacugaagcggggCGACCu -3'
miRNA:   3'- uuCGCUGCAGCGcaGCUUGA------------GCUGGu -5'
8083 3' -55.3 NC_001978.2 + 23185 0.67 0.53605
Target:  5'- uGAGCGGggcaaggucguuccCGUCGCGcUCGAcaaguggcguauCUCGACCGg -3'
miRNA:   3'- -UUCGCU--------------GCAGCGC-AGCUu-----------GAGCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 37873 0.68 0.530631
Target:  5'- gGGGCGccgucccguacaACGUCGCGcgUGAGCgggUCGGCCGg -3'
miRNA:   3'- -UUCGC------------UGCAGCGCa-GCUUG---AGCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 33826 0.68 0.488071
Target:  5'- -cGUGACGUCGCucgacuGUCGGGC-CGACg- -3'
miRNA:   3'- uuCGCUGCAGCG------CAGCUUGaGCUGgu -5'
8083 3' -55.3 NC_001978.2 + 22407 0.68 0.509164
Target:  5'- aGGGCGACGUCGggauaCGUCGccUUCGACg- -3'
miRNA:   3'- -UUCGCUGCAGC-----GCAGCuuGAGCUGgu -5'
8083 3' -55.3 NC_001978.2 + 31947 0.68 0.498568
Target:  5'- aGAGCGACaGUUGU-UCGGGCUCGAauCCGu -3'
miRNA:   3'- -UUCGCUG-CAGCGcAGCUUGAGCU--GGU- -5'
8083 3' -55.3 NC_001978.2 + 33879 0.69 0.477679
Target:  5'- cGAGCGACGUCaCGUCGAcaaACucagguUCGACg- -3'
miRNA:   3'- -UUCGCUGCAGcGCAGCU---UG------AGCUGgu -5'
8083 3' -55.3 NC_001978.2 + 27670 0.69 0.477679
Target:  5'- -cGCGaACGUCGUGgUGAuACUCGAUCAc -3'
miRNA:   3'- uuCGC-UGCAGCGCaGCU-UGAGCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 26607 0.69 0.467397
Target:  5'- gGAGCcugGGCGuUCGgGUCGuACUCGAUCGg -3'
miRNA:   3'- -UUCG---CUGC-AGCgCAGCuUGAGCUGGU- -5'
8083 3' -55.3 NC_001978.2 + 4597 0.69 0.456221
Target:  5'- cAGCGACGUCGCGaccaacggucgugUCGGGaggUCGAUCu -3'
miRNA:   3'- uUCGCUGCAGCGC-------------AGCUUg--AGCUGGu -5'
8083 3' -55.3 NC_001978.2 + 20471 0.69 0.457232
Target:  5'- cGGCGACGUCG-GcCGAccggcgcgACUCGACUu -3'
miRNA:   3'- uUCGCUGCAGCgCaGCU--------UGAGCUGGu -5'
8083 3' -55.3 NC_001978.2 + 14618 0.7 0.398882
Target:  5'- -uGCGACGgcCGUucuGUCGGagACUCGACCGa -3'
miRNA:   3'- uuCGCUGCa-GCG---CAGCU--UGAGCUGGU- -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.