miRNA display CGI


Results 1 - 20 of 35 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
9176 3' -58.6 NC_002512.2 + 121357 0.66 0.908618
Target:  5'- gGCCGUuggacGGCGGAGaggGCCGGAgAggagggCGa -3'
miRNA:   3'- -CGGCA-----CCGCCUCgcaCGGUCUgUa-----GC- -5'
9176 3' -58.6 NC_002512.2 + 123137 0.66 0.908618
Target:  5'- aGCCGgacGCGGAGCGccGCCGGGg---- -3'
miRNA:   3'- -CGGCac-CGCCUCGCa-CGGUCUguagc -5'
9176 3' -58.6 NC_002512.2 + 158985 0.66 0.896619
Target:  5'- gGCCacGGCGGGGCGgaggcggcgGCCccGGCGUCc -3'
miRNA:   3'- -CGGcaCCGCCUCGCa--------CGGu-CUGUAGc -5'
9176 3' -58.6 NC_002512.2 + 195785 0.66 0.890305
Target:  5'- aGCC-UGGaCGuGGGCGUGUUgcuccgcugcggGGACAUCGu -3'
miRNA:   3'- -CGGcACC-GC-CUCGCACGG------------UCUGUAGC- -5'
9176 3' -58.6 NC_002512.2 + 225730 0.66 0.889663
Target:  5'- aGCCGcGGCgacucgcucagucGGGGCGcgGCCgGGACAUgGg -3'
miRNA:   3'- -CGGCaCCG-------------CCUCGCa-CGG-UCUGUAgC- -5'
9176 3' -58.6 NC_002512.2 + 153422 0.66 0.883786
Target:  5'- --gGUGGCGGAaugGCGgcaggccgGCCGGGCG-CGg -3'
miRNA:   3'- cggCACCGCCU---CGCa-------CGGUCUGUaGC- -5'
9176 3' -58.6 NC_002512.2 + 75546 0.67 0.870146
Target:  5'- cGCCGUGGCGGAggacgacgacGCGgacgacuCCGGAUccCGg -3'
miRNA:   3'- -CGGCACCGCCU----------CGCac-----GGUCUGuaGC- -5'
9176 3' -58.6 NC_002512.2 + 139983 0.67 0.863034
Target:  5'- cCCGUGcCGGA-CGUcCCAGACAUCu -3'
miRNA:   3'- cGGCACcGCCUcGCAcGGUCUGUAGc -5'
9176 3' -58.6 NC_002512.2 + 228223 0.67 0.855734
Target:  5'- gGCCGggcgagacGGCGGgaagGGCGaacgUGCCGGACG-CGg -3'
miRNA:   3'- -CGGCa-------CCGCC----UCGC----ACGGUCUGUaGC- -5'
9176 3' -58.6 NC_002512.2 + 224144 0.67 0.84825
Target:  5'- cGCCGggaGGCGGAcGCGUgagGCgGGGCGggggCGc -3'
miRNA:   3'- -CGGCa--CCGCCU-CGCA---CGgUCUGUa---GC- -5'
9176 3' -58.6 NC_002512.2 + 222250 0.67 0.84597
Target:  5'- cGCCGUGGCGGGucucgugauggccuGCGcccUGCuCGGGCGc-- -3'
miRNA:   3'- -CGGCACCGCCU--------------CGC---ACG-GUCUGUagc -5'
9176 3' -58.6 NC_002512.2 + 134538 0.67 0.840588
Target:  5'- cGCUGUGGCGacaGAGCGaGCUGGAgcugAUCGg -3'
miRNA:   3'- -CGGCACCGC---CUCGCaCGGUCUg---UAGC- -5'
9176 3' -58.6 NC_002512.2 + 177679 0.67 0.835909
Target:  5'- cGCCGccaguuugcgguagaUGGggaucaGGGGCuucccccaggucGUGCCGGACAUCGu -3'
miRNA:   3'- -CGGC---------------ACCg-----CCUCG------------CACGGUCUGUAGC- -5'
9176 3' -58.6 NC_002512.2 + 127784 0.67 0.831963
Target:  5'- gGCCGaGGCcgcacagGGAGaCGUGCCGGAagaacUCGg -3'
miRNA:   3'- -CGGCaCCG-------CCUC-GCACGGUCUgu---AGC- -5'
9176 3' -58.6 NC_002512.2 + 185998 0.68 0.823949
Target:  5'- cGCCGUGGUGGGuCGU-CCGGcaccuggacgccuGCGUCGc -3'
miRNA:   3'- -CGGCACCGCCUcGCAcGGUC-------------UGUAGC- -5'
9176 3' -58.6 NC_002512.2 + 143684 0.68 0.79984
Target:  5'- aGCCG-GGCGGGGU--GUCGGGCA-CGg -3'
miRNA:   3'- -CGGCaCCGCCUCGcaCGGUCUGUaGC- -5'
9176 3' -58.6 NC_002512.2 + 193452 0.68 0.79125
Target:  5'- cGCCgGUGGCgGGAGCGgGCCcuccgGGACGa-- -3'
miRNA:   3'- -CGG-CACCG-CCUCGCaCGG-----UCUGUagc -5'
9176 3' -58.6 NC_002512.2 + 217793 0.68 0.79125
Target:  5'- gGCCGgcUGGCGGAucgGCGUcGCCGucccGAuCGUCGa -3'
miRNA:   3'- -CGGC--ACCGCCU---CGCA-CGGU----CU-GUAGC- -5'
9176 3' -58.6 NC_002512.2 + 226844 0.68 0.79125
Target:  5'- cGCCGUcaaGGCGGAGCaGgccGCCAGGgAggccCGg -3'
miRNA:   3'- -CGGCA---CCGCCUCG-Ca--CGGUCUgUa---GC- -5'
9176 3' -58.6 NC_002512.2 + 92543 0.68 0.78253
Target:  5'- gGCCGcGGCGGccGCG-GCgAcGACGUCGg -3'
miRNA:   3'- -CGGCaCCGCCu-CGCaCGgU-CUGUAGC- -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.