miRNA display CGI


Results 1 - 20 of 36 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
19781 3' -55.9 NC_004687.1 + 10713 0.66 0.919783
Target:  5'- cGUUGGGGUCG-GC-GCccuGGCCaGCGg -3'
miRNA:   3'- -CAACUCCAGCuUGaCGcu-CCGGaCGC- -5'
19781 3' -55.9 NC_004687.1 + 133283 0.66 0.908012
Target:  5'- cGUUGAGGUCGcuggccagcuuGACcagaucauUGUG-GGCCaUGCGg -3'
miRNA:   3'- -CAACUCCAGC-----------UUG--------ACGCuCCGG-ACGC- -5'
19781 3' -55.9 NC_004687.1 + 27103 0.66 0.901771
Target:  5'- cUUGuccAGG-CGAcGCUGCaGGGCCUGCu -3'
miRNA:   3'- cAAC---UCCaGCU-UGACGcUCCGGACGc -5'
19781 3' -55.9 NC_004687.1 + 110950 0.66 0.901771
Target:  5'- --cGGGGUCGGcgauguuguuCUGCuGGGCCaGCGa -3'
miRNA:   3'- caaCUCCAGCUu---------GACGcUCCGGaCGC- -5'
19781 3' -55.9 NC_004687.1 + 78470 0.66 0.901771
Target:  5'- --cGGcGGUCGAGCUGguccGGGCaCUGCGc -3'
miRNA:   3'- caaCU-CCAGCUUGACgc--UCCG-GACGC- -5'
19781 3' -55.9 NC_004687.1 + 107116 0.66 0.888589
Target:  5'- -cUGAcGGUCGAuCUGUGcGGCCU-CGg -3'
miRNA:   3'- caACU-CCAGCUuGACGCuCCGGAcGC- -5'
19781 3' -55.9 NC_004687.1 + 44587 0.66 0.887905
Target:  5'- -cUGGGGcCGGACcaGCGGGGCUacggcagUGCGc -3'
miRNA:   3'- caACUCCaGCUUGa-CGCUCCGG-------ACGC- -5'
19781 3' -55.9 NC_004687.1 + 14171 0.67 0.881655
Target:  5'- --cGAGGacgaGAACUGCGAGGCgucCUGg- -3'
miRNA:   3'- caaCUCCag--CUUGACGCUCCG---GACgc -5'
19781 3' -55.9 NC_004687.1 + 49048 0.67 0.881655
Target:  5'- ---cGGGUCGGGCUGUGgaAGGUC-GCGa -3'
miRNA:   3'- caacUCCAGCUUGACGC--UCCGGaCGC- -5'
19781 3' -55.9 NC_004687.1 + 36427 0.67 0.867123
Target:  5'- --cGAGGUCGGAguacaUGUugGuGGCCUGCu -3'
miRNA:   3'- caaCUCCAGCUUg----ACG--CuCCGGACGc -5'
19781 3' -55.9 NC_004687.1 + 3410 0.67 0.867123
Target:  5'- cUUGGGGUCGAgcagACUGUuggccuuggccGAGGUCUGg- -3'
miRNA:   3'- cAACUCCAGCU----UGACG-----------CUCCGGACgc -5'
19781 3' -55.9 NC_004687.1 + 111833 0.67 0.859535
Target:  5'- --cGAGGUCGAcgcgACcGCcuGGGCCUGgCGg -3'
miRNA:   3'- caaCUCCAGCU----UGaCGc-UCCGGAC-GC- -5'
19781 3' -55.9 NC_004687.1 + 63435 0.68 0.838858
Target:  5'- cGUUGAGGUCGGACaggGCGucauugucgccauacGGGUCcccggGCGc -3'
miRNA:   3'- -CAACUCCAGCUUGa--CGC---------------UCCGGa----CGC- -5'
19781 3' -55.9 NC_004687.1 + 88163 0.68 0.83556
Target:  5'- gGUUGccGUCGGACaGCcAGGCgUGCGg -3'
miRNA:   3'- -CAACucCAGCUUGaCGcUCCGgACGC- -5'
19781 3' -55.9 NC_004687.1 + 130311 0.68 0.830558
Target:  5'- --cGAGGUCGucCUGCGuauggucgccgacaaGGGUCUGUa -3'
miRNA:   3'- caaCUCCAGCuuGACGC---------------UCCGGACGc -5'
19781 3' -55.9 NC_004687.1 + 108853 0.68 0.827187
Target:  5'- --aGAGGUCGucgcugagcCUGCG-GGUCUGCc -3'
miRNA:   3'- caaCUCCAGCuu-------GACGCuCCGGACGc -5'
19781 3' -55.9 NC_004687.1 + 140619 0.68 0.818635
Target:  5'- --aGAGGUUGAuGCUgGCGGGGgCgGCGg -3'
miRNA:   3'- caaCUCCAGCU-UGA-CGCUCCgGaCGC- -5'
19781 3' -55.9 NC_004687.1 + 111143 0.68 0.818635
Target:  5'- ---aAGGcCu-ACUGCGAGGCgCUGCGg -3'
miRNA:   3'- caacUCCaGcuUGACGCUCCG-GACGC- -5'
19781 3' -55.9 NC_004687.1 + 108189 0.69 0.79199
Target:  5'- -gUGAGGagGGggugACUuucgGCGAGcGCCUGCGg -3'
miRNA:   3'- caACUCCagCU----UGA----CGCUC-CGGACGC- -5'
19781 3' -55.9 NC_004687.1 + 26206 0.69 0.744807
Target:  5'- --aGAGGUaacCGA--UGCGAaucGGCCUGCGg -3'
miRNA:   3'- caaCUCCA---GCUugACGCU---CCGGACGC- -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.