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
15763 3' -59.1 NC_004065.1 + 111989 0.65 0.860935
Target:  5'- cGACGAGCAGggC-CGCCugauccuCCGUcGGGAg -3'
miRNA:   3'- -CUGCUCGUCuaGaGCGG-------GGCGaCCUU- -5'
15763 3' -59.1 NC_004065.1 + 52800 0.66 0.854211
Target:  5'- aGGCGAGCAGAg--CGCgCCCGCccucGGc- -3'
miRNA:   3'- -CUGCUCGUCUagaGCG-GGGCGa---CCuu -5'
15763 3' -59.1 NC_004065.1 + 136670 0.66 0.838731
Target:  5'- cGACGGGCGGGUCUgGCCggCgGC-GGGc -3'
miRNA:   3'- -CUGCUCGUCUAGAgCGG--GgCGaCCUu -5'
15763 3' -59.1 NC_004065.1 + 229363 0.66 0.838731
Target:  5'- aGCGAGCGGGUgCUCGCUacgCGCggccGGAc -3'
miRNA:   3'- cUGCUCGUCUA-GAGCGGg--GCGa---CCUu -5'
15763 3' -59.1 NC_004065.1 + 86274 0.66 0.838731
Target:  5'- aACG-GUAGAUCUgcUGCCCgaGCUGGGg -3'
miRNA:   3'- cUGCuCGUCUAGA--GCGGGg-CGACCUu -5'
15763 3' -59.1 NC_004065.1 + 513 0.66 0.838731
Target:  5'- aGGCGGGguGAgg-CGCCCCGCcagcgUGuGAAg -3'
miRNA:   3'- -CUGCUCguCUagaGCGGGGCG-----AC-CUU- -5'
15763 3' -59.1 NC_004065.1 + 119185 0.66 0.830724
Target:  5'- cGCGGGCGGcccgCGCCCCGCacUGGu- -3'
miRNA:   3'- cUGCUCGUCuagaGCGGGGCG--ACCuu -5'
15763 3' -59.1 NC_004065.1 + 67586 0.66 0.829913
Target:  5'- cACGAcGCuGAUCUCGCCgucggagCUGCUGGu- -3'
miRNA:   3'- cUGCU-CGuCUAGAGCGG-------GGCGACCuu -5'
15763 3' -59.1 NC_004065.1 + 68139 0.66 0.822548
Target:  5'- cGACGAGCGucGGUCagGCCgCCGaUGGAGc -3'
miRNA:   3'- -CUGCUCGU--CUAGagCGG-GGCgACCUU- -5'
15763 3' -59.1 NC_004065.1 + 74920 0.67 0.805716
Target:  5'- aGGCGAcGCAGGgggagCUgGCCUgGUUGGGAa -3'
miRNA:   3'- -CUGCU-CGUCUa----GAgCGGGgCGACCUU- -5'
15763 3' -59.1 NC_004065.1 + 104132 0.67 0.804858
Target:  5'- uGGCGAGCGGAUCcucgucgUCGCCuuCCGCggcGGu- -3'
miRNA:   3'- -CUGCUCGUCUAG-------AGCGG--GGCGa--CCuu -5'
15763 3' -59.1 NC_004065.1 + 212405 0.67 0.797076
Target:  5'- -uUGAGCgAGAUCcucucucccgUCGCCCCGCUcgauguucuGGAGa -3'
miRNA:   3'- cuGCUCG-UCUAG----------AGCGGGGCGA---------CCUU- -5'
15763 3' -59.1 NC_004065.1 + 187871 0.67 0.797076
Target:  5'- aGAUGAuGCAGGUCUCGUgCaCGCUGu-- -3'
miRNA:   3'- -CUGCU-CGUCUAGAGCGgG-GCGACcuu -5'
15763 3' -59.1 NC_004065.1 + 23185 0.67 0.788296
Target:  5'- -uCGAGCAGGUCg-GCCCCGCcGa-- -3'
miRNA:   3'- cuGCUCGUCUAGagCGGGGCGaCcuu -5'
15763 3' -59.1 NC_004065.1 + 104003 0.67 0.77035
Target:  5'- gGGCGAGCGG--CUCGUggCGCUGGAGc -3'
miRNA:   3'- -CUGCUCGUCuaGAGCGggGCGACCUU- -5'
15763 3' -59.1 NC_004065.1 + 120245 0.67 0.77035
Target:  5'- cGCGGcGUAGcgCcUGCCCUGCUGGAc -3'
miRNA:   3'- cUGCU-CGUCuaGaGCGGGGCGACCUu -5'
15763 3' -59.1 NC_004065.1 + 82384 0.68 0.742587
Target:  5'- uGGCGAcGCAgucGAUCUCGCCCgUGCUGu-- -3'
miRNA:   3'- -CUGCU-CGU---CUAGAGCGGG-GCGACcuu -5'
15763 3' -59.1 NC_004065.1 + 169326 0.69 0.665186
Target:  5'- uGACGGgcGCAGcgccaucaccGUCUCGCCCUGgUGGGc -3'
miRNA:   3'- -CUGCU--CGUC----------UAGAGCGGGGCgACCUu -5'
15763 3' -59.1 NC_004065.1 + 198132 0.71 0.586135
Target:  5'- uGCGAGCuGGUCaUCGCCgCCGCcaUGGGu -3'
miRNA:   3'- cUGCUCGuCUAG-AGCGG-GGCG--ACCUu -5'
15763 3' -59.1 NC_004065.1 + 184909 0.73 0.462994
Target:  5'- cGACGAGUcGccUUCGCCgCCGCUGGAGg -3'
miRNA:   3'- -CUGCUCGuCuaGAGCGG-GGCGACCUU- -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.