miRNA display CGI


Results 1 - 20 of 64 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
25040 3' -57.2 NC_005336.1 + 130534 1.08 0.001985
Target:  5'- aGAGACUGCGCUUCAGCGCGGUGCUCAc -3'
miRNA:   3'- -CUCUGACGCGAAGUCGCGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 124663 0.82 0.123249
Target:  5'- -cGGCUGCGCUggaaAGCGCGGUGCUg- -3'
miRNA:   3'- cuCUGACGCGAag--UCGCGCCACGAgu -5'
25040 3' -57.2 NC_005336.1 + 42107 0.74 0.359876
Target:  5'- cGAGGCUGCGCUcgagcgugcggaucuUgGGCGUGGUguacgGCUCGa -3'
miRNA:   3'- -CUCUGACGCGA---------------AgUCGCGCCA-----CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 103503 0.74 0.372893
Target:  5'- cGAGG-UGCGCaucaacUUCGGCGCGGgccgGCUCAu -3'
miRNA:   3'- -CUCUgACGCG------AAGUCGCGCCa---CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 70368 0.74 0.389607
Target:  5'- -uGGCUgaacaacuccugGCGCUUCAGCGCGGaggagucGCUCAu -3'
miRNA:   3'- cuCUGA------------CGCGAAGUCGCGCCa------CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 122748 0.73 0.415581
Target:  5'- uGAGGCUGCGCUcgcCGGCcuGCGGcUGUUCGc -3'
miRNA:   3'- -CUCUGACGCGAa--GUCG--CGCC-ACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 61108 0.71 0.50919
Target:  5'- uGGACgUGCGCUUCGGCaacgaGGUGCUg- -3'
miRNA:   3'- cUCUG-ACGCGAAGUCGcg---CCACGAgu -5'
25040 3' -57.2 NC_005336.1 + 32467 0.71 0.529002
Target:  5'- aGAGA-UGCGCcgCAGCGC-GUGCUCu -3'
miRNA:   3'- -CUCUgACGCGaaGUCGCGcCACGAGu -5'
25040 3' -57.2 NC_005336.1 + 32879 0.7 0.559225
Target:  5'- -----aGCGCggCGGCGCGGUcGCUCGu -3'
miRNA:   3'- cucugaCGCGaaGUCGCGCCA-CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 35055 0.7 0.569411
Target:  5'- aGAGcAC-GCGCUcgCAGaagaCGCGGUGCUCGa -3'
miRNA:   3'- -CUC-UGaCGCGAa-GUC----GCGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 34164 0.7 0.579642
Target:  5'- aGAGACcaUGCGg--CAGUacGCGGUGCUCGu -3'
miRNA:   3'- -CUCUG--ACGCgaaGUCG--CGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 102121 0.7 0.589912
Target:  5'- uGGACUuCGCga-AGCGCGG-GCUCAu -3'
miRNA:   3'- cUCUGAcGCGaagUCGCGCCaCGAGU- -5'
25040 3' -57.2 NC_005336.1 + 5428 0.7 0.600212
Target:  5'- cGGGcACgugGCGCgUCAGCGCGGUcGC-CAc -3'
miRNA:   3'- -CUC-UGa--CGCGaAGUCGCGCCA-CGaGU- -5'
25040 3' -57.2 NC_005336.1 + 74457 0.69 0.620879
Target:  5'- aGAGAC-GCGCUcgcccgcgCGGCGCGuGcUGCUCGc -3'
miRNA:   3'- -CUCUGaCGCGAa-------GUCGCGC-C-ACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 125709 0.69 0.620879
Target:  5'- -cGGCgGCGCUcuucgUCAGCGgagaccaGGUGCUCGa -3'
miRNA:   3'- cuCUGaCGCGA-----AGUCGCg------CCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 44109 0.69 0.63123
Target:  5'- cGGACgcGCGUUUguGCGCGGagcGCUCGc -3'
miRNA:   3'- cUCUGa-CGCGAAguCGCGCCa--CGAGU- -5'
25040 3' -57.2 NC_005336.1 + 97562 0.69 0.639511
Target:  5'- -cGGCUGCGCgcgcuccacggCGGcCGCGGUGCg-- -3'
miRNA:   3'- cuCUGACGCGaa---------GUC-GCGCCACGagu -5'
25040 3' -57.2 NC_005336.1 + 133435 0.68 0.693049
Target:  5'- cAGACcGCGCUgcacCGcGCgGCGGUGUUCAg -3'
miRNA:   3'- cUCUGaCGCGAa---GU-CG-CGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 58411 0.68 0.693049
Target:  5'- --cGCgGCGCUgCA-CGCGGUGCUCGc -3'
miRNA:   3'- cucUGaCGCGAaGUcGCGCCACGAGU- -5'
25040 3' -57.2 NC_005336.1 + 133483 0.68 0.703223
Target:  5'- -cGGCuggUGCGCaUgGGCGCGGaGCUCGg -3'
miRNA:   3'- cuCUG---ACGCGaAgUCGCGCCaCGAGU- -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.