miRNA display CGI


Results 1 - 20 of 21 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
23228 3' -61.5 NC_005259.1 + 57699 0.66 0.46844
Target:  5'- -aGGUUGCcGGGCUUGcCCGACucgcgggucuGCCAg -3'
miRNA:   3'- gcUCGACGaCCCGGACuGGCUG----------CGGU- -5'
23228 3' -61.5 NC_005259.1 + 45479 0.66 0.467486
Target:  5'- cCGAGCUucuggccGCUGguGGCCUuggucGCUGugGCCAc -3'
miRNA:   3'- -GCUCGA-------CGAC--CCGGAc----UGGCugCGGU- -5'
23228 3' -61.5 NC_005259.1 + 31559 0.66 0.458941
Target:  5'- aGGGUgccGCUGcaccgcGCCUGAUCGuCGCCAu -3'
miRNA:   3'- gCUCGa--CGACc-----CGGACUGGCuGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 46678 0.66 0.440258
Target:  5'- gCGAGCUc---GGCCUGAgCCGcCGCCGc -3'
miRNA:   3'- -GCUCGAcgacCCGGACU-GGCuGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 18252 0.66 0.439336
Target:  5'- uCGAGCUGCccgccGcGCCUGAaccugagacgaccUCGACGCCc -3'
miRNA:   3'- -GCUCGACGa----CcCGGACU-------------GGCUGCGGu -5'
23228 3' -61.5 NC_005259.1 + 13214 0.66 0.413067
Target:  5'- gGGGCcaGCggUGGGCCUcGACCGGCcaccgugaggGCCGa -3'
miRNA:   3'- gCUCGa-CG--ACCCGGA-CUGGCUG----------CGGU- -5'
23228 3' -61.5 NC_005259.1 + 44400 0.66 0.412178
Target:  5'- cCGAGCacgucggUGCcc-GCCUGACCGgcaGCGCCGa -3'
miRNA:   3'- -GCUCG-------ACGaccCGGACUGGC---UGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 63645 0.67 0.386936
Target:  5'- gCGAGCUGCUcg--CUGGCCggGACGCCGg -3'
miRNA:   3'- -GCUCGACGAcccgGACUGG--CUGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 36120 0.68 0.338047
Target:  5'- uGAGCguaagcaGUUGGGCCgccgGGCUGuccguCGCCAu -3'
miRNA:   3'- gCUCGa------CGACCCGGa---CUGGCu----GCGGU- -5'
23228 3' -61.5 NC_005259.1 + 44337 0.68 0.328064
Target:  5'- gCGuAGCUGCcGGGCUUGuuccacggcucguuGCCGAggcuCGCCAc -3'
miRNA:   3'- -GC-UCGACGaCCCGGAC--------------UGGCU----GCGGU- -5'
23228 3' -61.5 NC_005259.1 + 64438 0.68 0.320535
Target:  5'- aCGAGCUGCcgGGGCgCUGcCCuuggggcggcgaacGACGCgCAa -3'
miRNA:   3'- -GCUCGACGa-CCCG-GACuGG--------------CUGCG-GU- -5'
23228 3' -61.5 NC_005259.1 + 14339 0.68 0.315342
Target:  5'- --cGCgUGC-GGGCC--GCCGACGCCAu -3'
miRNA:   3'- gcuCG-ACGaCCCGGacUGGCUGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 15137 0.69 0.293109
Target:  5'- uGAGgUGUacgGGGCCaccucggUGGCCGAgGCCGa -3'
miRNA:   3'- gCUCgACGa--CCCGG-------ACUGGCUgCGGU- -5'
23228 3' -61.5 NC_005259.1 + 50236 0.69 0.273437
Target:  5'- cCGAGC-GC-GGGCgCgGAUCGugGCCAa -3'
miRNA:   3'- -GCUCGaCGaCCCG-GaCUGGCugCGGU- -5'
23228 3' -61.5 NC_005259.1 + 58563 0.7 0.266903
Target:  5'- uCGGGCgGUUGGGCCgGAUcgCGGCGCg- -3'
miRNA:   3'- -GCUCGaCGACCCGGaCUG--GCUGCGgu -5'
23228 3' -61.5 NC_005259.1 + 26358 0.7 0.252355
Target:  5'- cCGAGCUGCgcguagaugucggUGGcgaGCCUGuugcucgcgauuCCGACGCCGg -3'
miRNA:   3'- -GCUCGACG-------------ACC---CGGACu-----------GGCUGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 26442 0.7 0.236116
Target:  5'- cCGAGCggGC-GGGCCggugGGCCGAUGUgGa -3'
miRNA:   3'- -GCUCGa-CGaCCCGGa---CUGGCUGCGgU- -5'
23228 3' -61.5 NC_005259.1 + 9549 0.72 0.193098
Target:  5'- aGAGCUGCccGGCCUcGACCG-CGUCGg -3'
miRNA:   3'- gCUCGACGacCCGGA-CUGGCuGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 6493 0.72 0.188231
Target:  5'- gCGGGUacUGCUGGcCCacaucGACCGACGCCGu -3'
miRNA:   3'- -GCUCG--ACGACCcGGa----CUGGCUGCGGU- -5'
23228 3' -61.5 NC_005259.1 + 17981 0.72 0.174274
Target:  5'- aCGGGCUGCgcauUGGGCCgcuacACCGAgGUCAa -3'
miRNA:   3'- -GCUCGACG----ACCCGGac---UGGCUgCGGU- -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.