miRNA display CGI


Results 1 - 20 of 60 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
5701 3' -56.7 NC_001806.1 + 2218 0.68 0.794223
Target:  5'- --aGGCGGCCGugUccGGCCcgcacaGCCGGUu -3'
miRNA:   3'- gcaUUGCCGGCugAa-UCGG------CGGCCAc -5'
5701 3' -56.7 NC_001806.1 + 2665 0.71 0.658897
Target:  5'- --cGGCGGCCG-CgggcGCCGCCGuGUGg -3'
miRNA:   3'- gcaUUGCCGGCuGaau-CGGCGGC-CAC- -5'
5701 3' -56.7 NC_001806.1 + 3189 0.66 0.895729
Target:  5'- --cGGCGGCCucGCU--GCCGCCGGc- -3'
miRNA:   3'- gcaUUGCCGGc-UGAauCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 3779 0.66 0.889132
Target:  5'- uCGUAucgGCGGCucauggccaCGGC--GGCCGCCGcGUGc -3'
miRNA:   3'- -GCAU---UGCCG---------GCUGaaUCGGCGGC-CAC- -5'
5701 3' -56.7 NC_001806.1 + 3865 0.73 0.548283
Target:  5'- gGgcACGGCCcGCgccacGCUGCCGGUGa -3'
miRNA:   3'- gCauUGCCGGcUGaau--CGGCGGCCAC- -5'
5701 3' -56.7 NC_001806.1 + 4318 0.73 0.548283
Target:  5'- gCGUcGCGGCCGGCcaccGCCGCgCGGg- -3'
miRNA:   3'- -GCAuUGCCGGCUGaau-CGGCG-GCCac -5'
5701 3' -56.7 NC_001806.1 + 9176 0.7 0.70893
Target:  5'- --cAACGGCCGugUagcccgggGGUCGCgGGUGu -3'
miRNA:   3'- gcaUUGCCGGCugAa-------UCGGCGgCCAC- -5'
5701 3' -56.7 NC_001806.1 + 17485 0.67 0.837018
Target:  5'- --cGACGGuuGGCcgAGCCGCUGaUGg -3'
miRNA:   3'- gcaUUGCCggCUGaaUCGGCGGCcAC- -5'
5701 3' -56.7 NC_001806.1 + 21735 0.66 0.900214
Target:  5'- aCGacGCGGCCGaccacgcacgcgagGCgcgGGCCGUCGGg- -3'
miRNA:   3'- -GCauUGCCGGC--------------UGaa-UCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 22094 0.67 0.837018
Target:  5'- uGUAcgGCGGCCugGGCgacAGCCGcCCGGg- -3'
miRNA:   3'- gCAU--UGCCGG--CUGaa-UCGGC-GGCCac -5'
5701 3' -56.7 NC_001806.1 + 22451 0.67 0.860572
Target:  5'- aCGcGGCGGCCGcCguggccaugAGCCGCCGa-- -3'
miRNA:   3'- -GCaUUGCCGGCuGaa-------UCGGCGGCcac -5'
5701 3' -56.7 NC_001806.1 + 22790 0.68 0.803101
Target:  5'- -----aGGCCGGCcgcgUGGCCGUCGaGUGc -3'
miRNA:   3'- gcauugCCGGCUGa---AUCGGCGGC-CAC- -5'
5701 3' -56.7 NC_001806.1 + 23083 0.66 0.902102
Target:  5'- cCGU-GCGcGCCGugaGCcUGGUCGCCGGg- -3'
miRNA:   3'- -GCAuUGC-CGGC---UGaAUCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 23934 0.68 0.773275
Target:  5'- ----cUGGCCGGCggcggggccugggggGGCCGCCGGa- -3'
miRNA:   3'- gcauuGCCGGCUGaa-------------UCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 24294 0.66 0.900214
Target:  5'- cCGUGcGCuGGCCGGCggcgcgggaccugcGCCGCaCGGUGc -3'
miRNA:   3'- -GCAU-UG-CCGGCUGaau-----------CGGCG-GCCAC- -5'
5701 3' -56.7 NC_001806.1 + 24793 0.67 0.837018
Target:  5'- --cGACGGCCcgggGGCccuGCCGCCGGc- -3'
miRNA:   3'- gcaUUGCCGG----CUGaauCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 30034 0.66 0.875277
Target:  5'- gCGggGCGGCCGAgg-GGCCGgaCGGg- -3'
miRNA:   3'- -GCauUGCCGGCUgaaUCGGCg-GCCac -5'
5701 3' -56.7 NC_001806.1 + 32680 0.7 0.70893
Target:  5'- aGUGGCguGGCCGAcCUUAGCCuCUGGg- -3'
miRNA:   3'- gCAUUG--CCGGCU-GAAUCGGcGGCCac -5'
5701 3' -56.7 NC_001806.1 + 33975 0.66 0.889132
Target:  5'- uCGUGcgGGCCGGg--GGUCGCCGGg- -3'
miRNA:   3'- -GCAUugCCGGCUgaaUCGGCGGCCac -5'
5701 3' -56.7 NC_001806.1 + 36622 0.66 0.895729
Target:  5'- uGUGcAUGGCCGuuUcGGCCuGCCaGGUGg -3'
miRNA:   3'- gCAU-UGCCGGCugAaUCGG-CGG-CCAC- -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.