miRNA display CGI


Results 1 - 20 of 32 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
19016 3' -63.4 NC_004684.1 + 1573 0.67 0.298034
Target:  5'- cCGCCGgugccuccGGGUCa---CCUGCCCGGUGc -3'
miRNA:   3'- -GCGGCa-------UCCAGcgcgGGACGGGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 4176 0.68 0.25846
Target:  5'- gGCCc--GGUUGCGCCCggcggGCgCGGUGg -3'
miRNA:   3'- gCGGcauCCAGCGCGGGa----CGgGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 9849 0.66 0.339832
Target:  5'- aGCuCGgcGGUCGCGCUCUggaggcgggccaccGCCuCGGg- -3'
miRNA:   3'- gCG-GCauCCAGCGCGGGA--------------CGG-GCCau -5'
19016 3' -63.4 NC_004684.1 + 12743 0.71 0.165087
Target:  5'- gGCCG-AGGUCGaCGCCCUcuugGCCCGc-- -3'
miRNA:   3'- gCGGCaUCCAGC-GCGGGA----CGGGCcau -5'
19016 3' -63.4 NC_004684.1 + 15063 0.67 0.31223
Target:  5'- aCGCCGgaugAGGUCGaCGgCCUuaucgGCgCGGUGg -3'
miRNA:   3'- -GCGGCa---UCCAGC-GCgGGA-----CGgGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 18151 0.71 0.160908
Target:  5'- cCGCUGUGGGgcgacgugcCGaCGCCCgGCCCGGc- -3'
miRNA:   3'- -GCGGCAUCCa--------GC-GCGGGaCGGGCCau -5'
19016 3' -63.4 NC_004684.1 + 18227 0.69 0.223285
Target:  5'- cCGCCG-AGacUGCGCCguaCUGCCCGGUGu -3'
miRNA:   3'- -GCGGCaUCcaGCGCGG---GACGGGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 19574 0.68 0.264744
Target:  5'- gGCC-UGGcGUCGUGCaCCUGCCCaGUc -3'
miRNA:   3'- gCGGcAUC-CAGCGCG-GGACGGGcCAu -5'
19016 3' -63.4 NC_004684.1 + 20226 0.67 0.298034
Target:  5'- uCGCC-UGGGU-GCGCCUggcGCgCCGGUAc -3'
miRNA:   3'- -GCGGcAUCCAgCGCGGGa--CG-GGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 22527 0.67 0.305069
Target:  5'- aCGCagGcAGGcCuCGCUCUGCCCGGUGu -3'
miRNA:   3'- -GCGg-CaUCCaGcGCGGGACGGGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 25000 0.68 0.271153
Target:  5'- uGCCcaacccGGUCGCGCUCaGCgCCGGUGc -3'
miRNA:   3'- gCGGcau---CCAGCGCGGGaCG-GGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 25990 0.69 0.246256
Target:  5'- aCGCCaccgcgacgGUAGGUCGaauaGCCaucgGCCCGGa- -3'
miRNA:   3'- -GCGG---------CAUCCAGCg---CGGga--CGGGCCau -5'
19016 3' -63.4 NC_004684.1 + 26420 0.67 0.326935
Target:  5'- gCGCUGgcagcgGGGuUCGcCGCCggugGCCCGGUGu -3'
miRNA:   3'- -GCGGCa-----UCC-AGC-GCGGga--CGGGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 27071 0.73 0.130775
Target:  5'- gCGCCG-AGGUCGUG-CCUGCCgGGc- -3'
miRNA:   3'- -GCGGCaUCCAGCGCgGGACGGgCCau -5'
19016 3' -63.4 NC_004684.1 + 28374 0.66 0.357064
Target:  5'- aGCCGUagAGGUCGauaccgaCGCCgUGCgugacgCCGGUGu -3'
miRNA:   3'- gCGGCA--UCCAGC-------GCGGgACG------GGCCAU- -5'
19016 3' -63.4 NC_004684.1 + 29574 0.67 0.291125
Target:  5'- cCGCUGUguAGGgCGCGCCgUGCCCc--- -3'
miRNA:   3'- -GCGGCA--UCCaGCGCGGgACGGGccau -5'
19016 3' -63.4 NC_004684.1 + 31943 0.66 0.349941
Target:  5'- gGCCGcaacGGUCGC-CCgCUGUCCGGc- -3'
miRNA:   3'- gCGGCau--CCAGCGcGG-GACGGGCCau -5'
19016 3' -63.4 NC_004684.1 + 36760 0.66 0.357862
Target:  5'- aCGCCGccaGGGcCGCGCCCggUGCCgacgcUGGUc -3'
miRNA:   3'- -GCGGCa--UCCaGCGCGGG--ACGG-----GCCAu -5'
19016 3' -63.4 NC_004684.1 + 37630 0.67 0.319519
Target:  5'- aCGCCGUcGGUgCGCugGCCauggccGCCCGGUc -3'
miRNA:   3'- -GCGGCAuCCA-GCG--CGGga----CGGGCCAu -5'
19016 3' -63.4 NC_004684.1 + 41722 1.06 0.000376
Target:  5'- cCGCCGUAGGUCGCGCCCUGCCCGGUAc -3'
miRNA:   3'- -GCGGCAUCCAGCGCGGGACGGGCCAU- -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.