miRNA display CGI


Results 1 - 20 of 39 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
11420 5' -56.9 NC_003085.1 + 1494 0.67 0.545672
Target:  5'- uGCUCGacgcGGC-CCgUCCGGcGCUCGg -3'
miRNA:   3'- cCGAGUa---CCGuGGgAGGCCuUGAGCg -5'
11420 5' -56.9 NC_003085.1 + 3214 0.69 0.420797
Target:  5'- aGGCUCGgcGGUACCUgcucgcauucaaaCCGGAACccuUCGCc -3'
miRNA:   3'- -CCGAGUa-CCGUGGGa------------GGCCUUG---AGCG- -5'
11420 5' -56.9 NC_003085.1 + 4454 0.69 0.405946
Target:  5'- cGC-CGUcGGCGCacuguUCUCCGGggUUCGCc -3'
miRNA:   3'- cCGaGUA-CCGUG-----GGAGGCCuuGAGCG- -5'
11420 5' -56.9 NC_003085.1 + 9146 0.7 0.361727
Target:  5'- ------cGGCACCUggCGGAGCUCGCc -3'
miRNA:   3'- ccgaguaCCGUGGGagGCCUUGAGCG- -5'
11420 5' -56.9 NC_003085.1 + 9453 0.68 0.473229
Target:  5'- cGCUCAUGGacgaGCUCgaggCCGGGcaAUUCGUc -3'
miRNA:   3'- cCGAGUACCg---UGGGa---GGCCU--UGAGCG- -5'
11420 5' -56.9 NC_003085.1 + 12012 0.66 0.577841
Target:  5'- cGGCcugaCGcUGGCGCaCCUgCCGGuGCUgCGCg -3'
miRNA:   3'- -CCGa---GU-ACCGUG-GGA-GGCCuUGA-GCG- -5'
11420 5' -56.9 NC_003085.1 + 12260 0.67 0.535072
Target:  5'- aGUUCAUGcGCGaCCggugcaUGGAACUCGCa -3'
miRNA:   3'- cCGAGUAC-CGUgGGag----GCCUUGAGCG- -5'
11420 5' -56.9 NC_003085.1 + 12610 0.69 0.415189
Target:  5'- cGCgCGUGGCGCCCcgggcgCUGGAuucugacaauCUCGCu -3'
miRNA:   3'- cCGaGUACCGUGGGa-----GGCCUu---------GAGCG- -5'
11420 5' -56.9 NC_003085.1 + 13562 0.72 0.283751
Target:  5'- uGGC-CGUGGCAUggCC-CUGGGACUcCGCg -3'
miRNA:   3'- -CCGaGUACCGUG--GGaGGCCUUGA-GCG- -5'
11420 5' -56.9 NC_003085.1 + 14922 0.69 0.434057
Target:  5'- cGGCUgGUGGCGCUCgcggCCGcuGugUUGCu -3'
miRNA:   3'- -CCGAgUACCGUGGGa---GGCc-UugAGCG- -5'
11420 5' -56.9 NC_003085.1 + 14930 0.72 0.276729
Target:  5'- aGCgCGUGGCGCUccaaCUCgCGGAACUgCGCg -3'
miRNA:   3'- cCGaGUACCGUGG----GAG-GCCUUGA-GCG- -5'
11420 5' -56.9 NC_003085.1 + 15951 0.66 0.621307
Target:  5'- cGGCUgGUGGCGCUC-CCuuGGC-CGCu -3'
miRNA:   3'- -CCGAgUACCGUGGGaGGccUUGaGCG- -5'
11420 5' -56.9 NC_003085.1 + 16239 0.7 0.396833
Target:  5'- cGGCUCAUGGaGCCCggCCGaGugcCUCGg -3'
miRNA:   3'- -CCGAGUACCgUGGGa-GGC-Cuu-GAGCg -5'
11420 5' -56.9 NC_003085.1 + 17466 0.68 0.503739
Target:  5'- cGCUCGUacuggcgaaaGGCACUCgCgCGGAAC-CGCg -3'
miRNA:   3'- cCGAGUA----------CCGUGGGaG-GCCUUGaGCG- -5'
11420 5' -56.9 NC_003085.1 + 17951 0.69 0.453413
Target:  5'- gGGCUCugcuggGGCACCUgaagcgCCGGcAGCgcgggcCGCa -3'
miRNA:   3'- -CCGAGua----CCGUGGGa-----GGCC-UUGa-----GCG- -5'
11420 5' -56.9 NC_003085.1 + 18109 0.72 0.305659
Target:  5'- cGGCUgcgCAUGGCGgCCUaCCGGuACguccgCGCg -3'
miRNA:   3'- -CCGA---GUACCGUgGGA-GGCCuUGa----GCG- -5'
11420 5' -56.9 NC_003085.1 + 18678 0.67 0.556338
Target:  5'- cGCUCAcGGC-UCUUCCGGucgAGgUCGCg -3'
miRNA:   3'- cCGAGUaCCGuGGGAGGCC---UUgAGCG- -5'
11420 5' -56.9 NC_003085.1 + 18801 0.66 0.577841
Target:  5'- aGGCgCAgaGCGCCCUgCCGcagcGACUCGCc -3'
miRNA:   3'- -CCGaGUacCGUGGGA-GGCc---UUGAGCG- -5'
11420 5' -56.9 NC_003085.1 + 21251 0.67 0.524546
Target:  5'- uGGC-CGacacUGGCGCCaaCUCCGcGAAgUCGUa -3'
miRNA:   3'- -CCGaGU----ACCGUGG--GAGGC-CUUgAGCG- -5'
11420 5' -56.9 NC_003085.1 + 21564 0.66 0.610404
Target:  5'- aGCUCGUGGaCGCCCUgcaCCaGGuGACggGCa -3'
miRNA:   3'- cCGAGUACC-GUGGGA---GG-CC-UUGagCG- -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.