miRNA display CGI


Results 1 - 20 of 40 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
23774 3' -55.4 NC_005261.1 + 41893 0.66 0.91356
Target:  5'- -cGUACUCG-CgCA-GCGUGGGGUugggauaaGGCa -3'
miRNA:   3'- uaCAUGAGCuG-GUaCGCGCUCCA--------CCG- -5'
23774 3' -55.4 NC_005261.1 + 35835 0.66 0.91356
Target:  5'- ---aGCUCGGCgCAgaaaaggcgGCGCaccgaaaugGAGGUGGCc -3'
miRNA:   3'- uacaUGAGCUG-GUa--------CGCG---------CUCCACCG- -5'
23774 3' -55.4 NC_005261.1 + 132531 0.66 0.91356
Target:  5'- -aGUACgagcgCGcCCucgcGCGCGAGGgcgaGGCg -3'
miRNA:   3'- uaCAUGa----GCuGGua--CGCGCUCCa---CCG- -5'
23774 3' -55.4 NC_005261.1 + 96697 0.66 0.907457
Target:  5'- -gGUACUggCGACCcaGCaGCGAGuUGGCg -3'
miRNA:   3'- uaCAUGA--GCUGGuaCG-CGCUCcACCG- -5'
23774 3' -55.4 NC_005261.1 + 117093 0.66 0.901111
Target:  5'- -aGUACUCGAUCAUGCuccCGAcGcGcGGCg -3'
miRNA:   3'- uaCAUGAGCUGGUACGc--GCU-C-CaCCG- -5'
23774 3' -55.4 NC_005261.1 + 73700 0.66 0.901111
Target:  5'- ---gGCUCGGCCAUgGCGCaGGaccgcGGUcGGCg -3'
miRNA:   3'- uacaUGAGCUGGUA-CGCG-CU-----CCA-CCG- -5'
23774 3' -55.4 NC_005261.1 + 59849 0.66 0.894525
Target:  5'- -aGgg--CGGCCAUGCGCGGGacGUcGGCc -3'
miRNA:   3'- uaCaugaGCUGGUACGCGCUC--CA-CCG- -5'
23774 3' -55.4 NC_005261.1 + 1713 0.66 0.89046
Target:  5'- -gGUACUCGcgcggcggcacgggcACCgcgGUGCGCGGGcccaggcgcGUGGCc -3'
miRNA:   3'- uaCAUGAGC---------------UGG---UACGCGCUC---------CACCG- -5'
23774 3' -55.4 NC_005261.1 + 69288 0.66 0.887702
Target:  5'- ---cGC-CGACCccgGCGCGGggcgccGGUGGCg -3'
miRNA:   3'- uacaUGaGCUGGua-CGCGCU------CCACCG- -5'
23774 3' -55.4 NC_005261.1 + 79791 0.66 0.883497
Target:  5'- -aGUACgucaCGGCCAuggcgucccccaacaUGCGCGcGGcGGCg -3'
miRNA:   3'- uaCAUGa---GCUGGU---------------ACGCGCuCCaCCG- -5'
23774 3' -55.4 NC_005261.1 + 15429 0.66 0.880647
Target:  5'- ---gAgUCGGCCggGCGCGGGccGGCg -3'
miRNA:   3'- uacaUgAGCUGGuaCGCGCUCcaCCG- -5'
23774 3' -55.4 NC_005261.1 + 112174 0.66 0.880647
Target:  5'- ---cGC-CGGCCGcGCGCGGGGcucgcUGGCc -3'
miRNA:   3'- uacaUGaGCUGGUaCGCGCUCC-----ACCG- -5'
23774 3' -55.4 NC_005261.1 + 46377 0.66 0.879929
Target:  5'- -aGUGCUCGcuCUcgGCGCcggccccgucgccGAcGGUGGCg -3'
miRNA:   3'- uaCAUGAGCu-GGuaCGCG-------------CU-CCACCG- -5'
23774 3' -55.4 NC_005261.1 + 123711 0.67 0.865858
Target:  5'- -cGUACUCGGCCAUcaGCaGCGucGUcGCg -3'
miRNA:   3'- uaCAUGAGCUGGUA--CG-CGCucCAcCG- -5'
23774 3' -55.4 NC_005261.1 + 85128 0.67 0.865095
Target:  5'- ---aGCUCGGCCAcguugcccgGCGUGAGGUugacguaguugauGGCc -3'
miRNA:   3'- uacaUGAGCUGGUa--------CGCGCUCCA-------------CCG- -5'
23774 3' -55.4 NC_005261.1 + 133831 0.67 0.8502
Target:  5'- --cUGCgCGGCCgcGUGCGCGccGUGGCc -3'
miRNA:   3'- uacAUGaGCUGG--UACGCGCucCACCG- -5'
23774 3' -55.4 NC_005261.1 + 46328 0.67 0.842062
Target:  5'- cUGcGCUUGGCCAUGCGCccaaacucGGUccGGCa -3'
miRNA:   3'- uACaUGAGCUGGUACGCGcu------CCA--CCG- -5'
23774 3' -55.4 NC_005261.1 + 75264 0.67 0.842062
Target:  5'- -cGUACUCGGCCuucgaGUGCGCGGuGcUGuGCc -3'
miRNA:   3'- uaCAUGAGCUGG-----UACGCGCUcC-AC-CG- -5'
23774 3' -55.4 NC_005261.1 + 62801 0.67 0.842062
Target:  5'- aAUGUuucggGCUgGGCCAUaucgccGCGCGGGGcaccGGCg -3'
miRNA:   3'- -UACA-----UGAgCUGGUA------CGCGCUCCa---CCG- -5'
23774 3' -55.4 NC_005261.1 + 85915 0.68 0.833727
Target:  5'- gGUGgccUGCUCGACCGUGCucu-GGaUGGCg -3'
miRNA:   3'- -UAC---AUGAGCUGGUACGcgcuCC-ACCG- -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.