miRNA display CGI


Results 1 - 20 of 37 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
23396 3' -62.9 NC_005259.1 + 58779 0.66 0.403302
Target:  5'- gGCGCUgugcGCCggucgaggcggugauUGCCUCGGCGGGcucgcGCUGc -3'
miRNA:   3'- -CGCGA----CGG---------------ACGGAGCCGCUCca---CGGC- -5'
23396 3' -62.9 NC_005259.1 + 2081 0.66 0.403302
Target:  5'- uGgGCggGCCUGCUcgauuucaUCGGCGAGGccaauuggcacacgcUcGCCGa -3'
miRNA:   3'- -CgCGa-CGGACGG--------AGCCGCUCC---------------A-CGGC- -5'
23396 3' -62.9 NC_005259.1 + 39904 0.66 0.399851
Target:  5'- cCGCcGCCcGCCUCGauccguCGAGG-GCCGc -3'
miRNA:   3'- cGCGaCGGaCGGAGCc-----GCUCCaCGGC- -5'
23396 3' -62.9 NC_005259.1 + 28224 0.66 0.399851
Target:  5'- cGUGCcGCCaccGUCggCGGCGGGGUGgUCGa -3'
miRNA:   3'- -CGCGaCGGa--CGGa-GCCGCUCCAC-GGC- -5'
23396 3' -62.9 NC_005259.1 + 23459 0.66 0.391306
Target:  5'- uUGCUuucGCaCgggGCCUCGGCauugucGGUGCCGa -3'
miRNA:   3'- cGCGA---CG-Ga--CGGAGCCGcu----CCACGGC- -5'
23396 3' -62.9 NC_005259.1 + 68041 0.66 0.382881
Target:  5'- -gGUUGaUCUGCUUgGGCGAGGUGagcaCGc -3'
miRNA:   3'- cgCGAC-GGACGGAgCCGCUCCACg---GC- -5'
23396 3' -62.9 NC_005259.1 + 35204 0.66 0.382881
Target:  5'- cGUGCcGCCUGaggCGGCGAGGaacgUGaCCGc -3'
miRNA:   3'- -CGCGaCGGACggaGCCGCUCC----AC-GGC- -5'
23396 3' -62.9 NC_005259.1 + 64799 0.66 0.382881
Target:  5'- -gGCUGUgUGCCUCGGCcucggcggcaauGAGcGUGUgGu -3'
miRNA:   3'- cgCGACGgACGGAGCCG------------CUC-CACGgC- -5'
23396 3' -62.9 NC_005259.1 + 2223 0.66 0.382881
Target:  5'- aGCGCccgGCCUcGCCauuugUCGGCGAca-GCCGg -3'
miRNA:   3'- -CGCGa--CGGA-CGG-----AGCCGCUccaCGGC- -5'
23396 3' -62.9 NC_005259.1 + 10748 0.66 0.366397
Target:  5'- cGCGCUGCCgggcgaucaucaUGUCgggCGGgucauCGAGGUggGCCGc -3'
miRNA:   3'- -CGCGACGG------------ACGGa--GCC-----GCUCCA--CGGC- -5'
23396 3' -62.9 NC_005259.1 + 43320 0.66 0.366397
Target:  5'- uGCGUUgGCCaccGCCUUGGCGAuGG-GCaCGa -3'
miRNA:   3'- -CGCGA-CGGa--CGGAGCCGCU-CCaCG-GC- -5'
23396 3' -62.9 NC_005259.1 + 55537 0.67 0.35834
Target:  5'- aGCGCcGCCU-CgUUGGCGucgAGGaUGCCGa -3'
miRNA:   3'- -CGCGaCGGAcGgAGCCGC---UCC-ACGGC- -5'
23396 3' -62.9 NC_005259.1 + 45967 0.67 0.35834
Target:  5'- aCGUUGCCgagCUUGGCGAGuGUGuCCGc -3'
miRNA:   3'- cGCGACGGacgGAGCCGCUC-CAC-GGC- -5'
23396 3' -62.9 NC_005259.1 + 36242 0.67 0.35834
Target:  5'- aGCGCgagcGCCUGCgUCGGC-AGcGccacGCCGg -3'
miRNA:   3'- -CGCGa---CGGACGgAGCCGcUC-Ca---CGGC- -5'
23396 3' -62.9 NC_005259.1 + 28063 0.67 0.342602
Target:  5'- uGCGaccCCUGCCgccacaCGGUGGGGUGCa- -3'
miRNA:   3'- -CGCgacGGACGGa-----GCCGCUCCACGgc -5'
23396 3' -62.9 NC_005259.1 + 20173 0.67 0.327368
Target:  5'- cGCGCccGCC-GCCUCGGCugacGAGaucGCCGg -3'
miRNA:   3'- -CGCGa-CGGaCGGAGCCG----CUCca-CGGC- -5'
23396 3' -62.9 NC_005259.1 + 54776 0.67 0.327368
Target:  5'- uUGCuuaUGCCUGCCaCaGUGcGGUGCCGa -3'
miRNA:   3'- cGCG---ACGGACGGaGcCGCuCCACGGC- -5'
23396 3' -62.9 NC_005259.1 + 34015 0.67 0.319942
Target:  5'- -gGCUGUauccgGCCUCGGCGGcGUGCg- -3'
miRNA:   3'- cgCGACGga---CGGAGCCGCUcCACGgc -5'
23396 3' -62.9 NC_005259.1 + 29083 0.68 0.312643
Target:  5'- uGCGCUGCCaagGCCgggUGGUGAGcugaUGCgGa -3'
miRNA:   3'- -CGCGACGGa--CGGa--GCCGCUCc---ACGgC- -5'
23396 3' -62.9 NC_005259.1 + 60277 0.68 0.312643
Target:  5'- aGCGCUGCCgggcgGCCaUCGuCGucGGUGCgGc -3'
miRNA:   3'- -CGCGACGGa----CGG-AGCcGCu-CCACGgC- -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.