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
27472 5' -60.2 NC_005869.1 + 27849 0.66 0.353161
Target:  5'- gCGAGCACUUUgaGGCCGa--GuGCAUCc -3'
miRNA:   3'- -GCUCGUGAGAggCCGGCcugC-CGUAG- -5'
27472 5' -60.2 NC_005869.1 + 17129 0.66 0.353161
Target:  5'- gGGGCGC-CUCCaGGaCUGGAacCGGCAc- -3'
miRNA:   3'- gCUCGUGaGAGG-CC-GGCCU--GCCGUag -5'
27472 5' -60.2 NC_005869.1 + 20652 0.66 0.349797
Target:  5'- uGGGCGCgcgugCgccaggugaacagCCGGCUGcuGAUGGCGUCg -3'
miRNA:   3'- gCUCGUGa----Ga------------GGCCGGC--CUGCCGUAG- -5'
27472 5' -60.2 NC_005869.1 + 10445 0.66 0.344792
Target:  5'- aGGGCcugACgCUgCuGCCGGACGGCAg- -3'
miRNA:   3'- gCUCG---UGaGAgGcCGGCCUGCCGUag -5'
27472 5' -60.2 NC_005869.1 + 5758 0.66 0.343963
Target:  5'- gGAGCGCaggggCCGGUCGGcgaugggggugccGCGGuCGUCg -3'
miRNA:   3'- gCUCGUGaga--GGCCGGCC-------------UGCC-GUAG- -5'
27472 5' -60.2 NC_005869.1 + 17242 0.66 0.328485
Target:  5'- aGGGcCAC-CUCCGuGgCGGugGGCGg- -3'
miRNA:   3'- gCUC-GUGaGAGGC-CgGCCugCCGUag -5'
27472 5' -60.2 NC_005869.1 + 7936 0.66 0.320547
Target:  5'- uGAGCucCUCUCCGGU--GugGGgGUCu -3'
miRNA:   3'- gCUCGu-GAGAGGCCGgcCugCCgUAG- -5'
27472 5' -60.2 NC_005869.1 + 17267 0.66 0.320547
Target:  5'- uGGGCACcaacacgCcCCGGCugaggagcgccuCGGugGGCGUCc -3'
miRNA:   3'- gCUCGUGa------GaGGCCG------------GCCugCCGUAG- -5'
27472 5' -60.2 NC_005869.1 + 23396 0.66 0.318194
Target:  5'- aGAGCGCgucgccccCUCCgcgcccagggcgccGGCCGG-CGGCuUCa -3'
miRNA:   3'- gCUCGUGa-------GAGG--------------CCGGCCuGCCGuAG- -5'
27472 5' -60.2 NC_005869.1 + 22052 0.66 0.312755
Target:  5'- -cGGC-CUCgUCCGGgCGGAUGGCcgagGUCu -3'
miRNA:   3'- gcUCGuGAG-AGGCCgGCCUGCCG----UAG- -5'
27472 5' -60.2 NC_005869.1 + 24558 0.66 0.312755
Target:  5'- gGGGCGCcuucgagCUgCGGCCccgggaGGGCGGCcgCg -3'
miRNA:   3'- gCUCGUGa------GAgGCCGG------CCUGCCGuaG- -5'
27472 5' -60.2 NC_005869.1 + 23158 0.67 0.297602
Target:  5'- gGAGCACUCgcucCCGGUCcaGCuGCAUCu -3'
miRNA:   3'- gCUCGUGAGa---GGCCGGccUGcCGUAG- -5'
27472 5' -60.2 NC_005869.1 + 9529 0.67 0.26902
Target:  5'- gGGGCGCagguuccguUCUCCuggcGCCGcGGCGGCGUg -3'
miRNA:   3'- gCUCGUG---------AGAGGc---CGGC-CUGCCGUAg -5'
27472 5' -60.2 NC_005869.1 + 7507 0.69 0.224383
Target:  5'- gGGGCAC-CUCgCGG-CGGugGGCGa- -3'
miRNA:   3'- gCUCGUGaGAG-GCCgGCCugCCGUag -5'
27472 5' -60.2 NC_005869.1 + 7884 0.69 0.212839
Target:  5'- uGGGCuucCUCCGGagGGGCGGCAUg -3'
miRNA:   3'- gCUCGugaGAGGCCggCCUGCCGUAg -5'
27472 5' -60.2 NC_005869.1 + 17820 0.7 0.176387
Target:  5'- aGAGCGCUUgguggUCCGGCCgcgGGACgcgGGgGUCg -3'
miRNA:   3'- gCUCGUGAG-----AGGCCGG---CCUG---CCgUAG- -5'
27472 5' -60.2 NC_005869.1 + 27611 0.71 0.162537
Target:  5'- cCGuGCGC-CUCCuGCCGGACGagcgcaacaGCAUCu -3'
miRNA:   3'- -GCuCGUGaGAGGcCGGCCUGC---------CGUAG- -5'
27472 5' -60.2 NC_005869.1 + 8415 0.71 0.162537
Target:  5'- gCGGGCACUCg-CGGUagaCGGugGGCAc- -3'
miRNA:   3'- -GCUCGUGAGagGCCG---GCCugCCGUag -5'
27472 5' -60.2 NC_005869.1 + 27475 1.09 0.000186
Target:  5'- gCGAGCACUCUCCGGCCGGACGGCAUCu -3'
miRNA:   3'- -GCUCGUGAGAGGCCGGCCUGCCGUAG- -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.