miRNA display CGI


Results 1 - 20 of 29 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
27647 3' -64.6 NC_005882.1 + 15117 0.66 0.194437
Target:  5'- cAGCGCGCgcgacagccaugcGCCGCCGCUguucuUCgGCaCGCa -3'
miRNA:   3'- -UUGUGCGa------------CGGCGGCGG-----AGgCG-GCGa -5'
27647 3' -64.6 NC_005882.1 + 16056 0.66 0.191383
Target:  5'- cGCACGCacccGCCGacgugCGCgUCCGCgCGCa -3'
miRNA:   3'- uUGUGCGa---CGGCg----GCGgAGGCG-GCGa -5'
27647 3' -64.6 NC_005882.1 + 17208 0.66 0.189872
Target:  5'- gGACGCGCUGCaggaacggcuugccCGCgCGaUCUUCGUCGCg -3'
miRNA:   3'- -UUGUGCGACG--------------GCG-GC-GGAGGCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 10354 0.66 0.185894
Target:  5'- gAugAUGCUGCCGaCCGCguacguuUUCC-CCGCa -3'
miRNA:   3'- -UugUGCGACGGC-GGCG-------GAGGcGGCGa -5'
27647 3' -64.6 NC_005882.1 + 6691 0.66 0.176739
Target:  5'- cGGCACGCagGuuGCCGCgaauaaccgaCUCCGCCu-- -3'
miRNA:   3'- -UUGUGCGa-CggCGGCG----------GAGGCGGcga -5'
27647 3' -64.6 NC_005882.1 + 7782 0.66 0.172083
Target:  5'- -cCACGCcGUCGCCauccuccguaGCCUCgaCGCCGCc -3'
miRNA:   3'- uuGUGCGaCGGCGG----------CGGAG--GCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 26208 0.67 0.167537
Target:  5'- -uCGCcaCUGCCGgCGCCUUCGCgGCc -3'
miRNA:   3'- uuGUGc-GACGGCgGCGGAGGCGgCGa -5'
27647 3' -64.6 NC_005882.1 + 6528 0.67 0.1631
Target:  5'- -uCACGCaGCCauugcgggacGUCGUCUCCGuCCGCa -3'
miRNA:   3'- uuGUGCGaCGG----------CGGCGGAGGC-GGCGa -5'
27647 3' -64.6 NC_005882.1 + 25382 0.67 0.158768
Target:  5'- cGGCACGCgcacgaCGCUgaaugGCCUCgGCCGCg -3'
miRNA:   3'- -UUGUGCGacg---GCGG-----CGGAGgCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 26110 0.67 0.15454
Target:  5'- gGACGCGCUGacgcagaucaUCGCCaGCCUCgaagucgGCCGCg -3'
miRNA:   3'- -UUGUGCGAC----------GGCGG-CGGAGg------CGGCGa -5'
27647 3' -64.6 NC_005882.1 + 21742 0.67 0.15454
Target:  5'- cGCGCGC-GCCGUCGCCagUUCGaCGCg -3'
miRNA:   3'- uUGUGCGaCGGCGGCGG--AGGCgGCGa -5'
27647 3' -64.6 NC_005882.1 + 12887 0.67 0.150414
Target:  5'- -cCGCGUguggaacGCCGCCGCCggCGCCGa- -3'
miRNA:   3'- uuGUGCGa------CGGCGGCGGagGCGGCga -5'
27647 3' -64.6 NC_005882.1 + 21038 0.67 0.146389
Target:  5'- uAC-CGCUGCCGCCGgCCUgaaCCGCUu -3'
miRNA:   3'- uUGuGCGACGGCGGC-GGAggcGGCGA- -5'
27647 3' -64.6 NC_005882.1 + 25639 0.68 0.138633
Target:  5'- cAUACGCgacgGCgGCUGCCaCgGCCGCg -3'
miRNA:   3'- uUGUGCGa---CGgCGGCGGaGgCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 11919 0.68 0.131255
Target:  5'- -uCGCGUUGCucggCGCCGCCgcgCCcgugGCCGCg -3'
miRNA:   3'- uuGUGCGACG----GCGGCGGa--GG----CGGCGa -5'
27647 3' -64.6 NC_005882.1 + 21495 0.68 0.12424
Target:  5'- cGACGCGCacuugcGCgGCCGCUacaacCUGCCGCUg -3'
miRNA:   3'- -UUGUGCGa-----CGgCGGCGGa----GGCGGCGA- -5'
27647 3' -64.6 NC_005882.1 + 12593 0.68 0.120865
Target:  5'- --aGCGCcgGCCGCCGCCgcgacacacUgGCCGCg -3'
miRNA:   3'- uugUGCGa-CGGCGGCGGa--------GgCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 11811 0.69 0.105234
Target:  5'- gAGCugGUguucGCCGCgGCCaugcUUCGCCGCg -3'
miRNA:   3'- -UUGugCGa---CGGCGgCGG----AGGCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 27581 0.7 0.089991
Target:  5'- cGCGCGCgGCCGCCggcauggcgacgcagGCCgCgGCCGCg -3'
miRNA:   3'- uUGUGCGaCGGCGG---------------CGGaGgCGGCGa -5'
27647 3' -64.6 NC_005882.1 + 26642 0.7 0.088986
Target:  5'- cGCGCGCUGCUGCCGucgcucacggaCCugaugaacacggUCaCGCCGCUg -3'
miRNA:   3'- uUGUGCGACGGCGGC-----------GG------------AG-GCGGCGA- -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.