miRNA display CGI


Results 1 - 19 of 19 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
3114 5' -56.9 NC_001493.1 + 126054 0.66 0.865532
Target:  5'- cACGGGUUCUauucACCGGGcucGGGuUA-CCAGa -3'
miRNA:   3'- -UGCUCGAGA----UGGCCC---CCCuAUaGGUC- -5'
3114 5' -56.9 NC_001493.1 + 87904 0.66 0.865532
Target:  5'- cCG-GCUCcucguacGCCGcGGGGGGcagGUCCAGu -3'
miRNA:   3'- uGCuCGAGa------UGGC-CCCCCUa--UAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 32623 0.66 0.842044
Target:  5'- aAUGAGUc---CCGGGGGGA-AUCCAc -3'
miRNA:   3'- -UGCUCGagauGGCCCCCCUaUAGGUc -5'
3114 5' -56.9 NC_001493.1 + 24967 0.66 0.842044
Target:  5'- gGCGAcugucuGCUC-GCgGGGGGGAUA-CUGGg -3'
miRNA:   3'- -UGCU------CGAGaUGgCCCCCCUAUaGGUC- -5'
3114 5' -56.9 NC_001493.1 + 87863 0.66 0.833822
Target:  5'- --cAGCUCcucguacGCCGcGGGGGGcagGUCCAGg -3'
miRNA:   3'- ugcUCGAGa------UGGC-CCCCCUa--UAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 87561 0.67 0.798273
Target:  5'- cGCGGGCUCaccucCCGGGGcgcucauGGGU-UCCGGg -3'
miRNA:   3'- -UGCUCGAGau---GGCCCC-------CCUAuAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 123391 0.67 0.79011
Target:  5'- uCGGGUUCc-CCGGGGGGAggguuaAUCgGGg -3'
miRNA:   3'- uGCUCGAGauGGCCCCCCUa-----UAGgUC- -5'
3114 5' -56.9 NC_001493.1 + 7837 0.67 0.79011
Target:  5'- uCGGGUUCc-CCGGGGGGAggguuaAUCgGGg -3'
miRNA:   3'- uGCUCGAGauGGCCCCCCUa-----UAGgUC- -5'
3114 5' -56.9 NC_001493.1 + 48165 0.67 0.79011
Target:  5'- cCGAcGCUCgugGCCGGGuuGGGGg--CCGGg -3'
miRNA:   3'- uGCU-CGAGa--UGGCCC--CCCUauaGGUC- -5'
3114 5' -56.9 NC_001493.1 + 89533 0.67 0.789196
Target:  5'- gACGAGCUUggagaGCUucgggaaGGGGGGGUugGUCCGc -3'
miRNA:   3'- -UGCUCGAGa----UGG-------CCCCCCUA--UAGGUc -5'
3114 5' -56.9 NC_001493.1 + 33438 0.7 0.642138
Target:  5'- uCGAGCUCUcguUCGGugcGGGGAcgGUCCGGu -3'
miRNA:   3'- uGCUCGAGAu--GGCC---CCCCUa-UAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 30825 0.7 0.621628
Target:  5'- gACGGGC-CggugGUCGGGGGGAgcaccagGUCCAGc -3'
miRNA:   3'- -UGCUCGaGa---UGGCCCCCCUa------UAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 38865 0.71 0.601149
Target:  5'- cCGGGCUCaccaagcucaUACaggugCGGGGGGAcAUCCGGa -3'
miRNA:   3'- uGCUCGAG----------AUG-----GCCCCCCUaUAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 121196 0.71 0.560524
Target:  5'- cCGGGUUC-ACCGGGGaGGAga-CCAGg -3'
miRNA:   3'- uGCUCGAGaUGGCCCC-CCUauaGGUC- -5'
3114 5' -56.9 NC_001493.1 + 5641 0.71 0.560524
Target:  5'- cCGGGUUC-ACCGGGGaGGAga-CCAGg -3'
miRNA:   3'- uGCUCGAGaUGGCCCC-CCUauaGGUC- -5'
3114 5' -56.9 NC_001493.1 + 58283 0.72 0.501188
Target:  5'- uCGAGUagCU-CCGGGGuGGGUAUCCAa -3'
miRNA:   3'- uGCUCGa-GAuGGCCCC-CCUAUAGGUc -5'
3114 5' -56.9 NC_001493.1 + 40774 0.75 0.383729
Target:  5'- --aAGCUC-GCCGGuGGGGGUAUCCAu -3'
miRNA:   3'- ugcUCGAGaUGGCC-CCCCUAUAGGUc -5'
3114 5' -56.9 NC_001493.1 + 94406 0.77 0.272854
Target:  5'- cACGAGCUgaacACCGGGGGuucgGGUGUCCGGg -3'
miRNA:   3'- -UGCUCGAga--UGGCCCCC----CUAUAGGUC- -5'
3114 5' -56.9 NC_001493.1 + 103080 1.09 0.002165
Target:  5'- uACGAGCUCUACCGGGGGGAUAUCCAGg -3'
miRNA:   3'- -UGCUCGAGAUGGCCCCCCUAUAGGUC- -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.