miRNA display CGI


Results 1 - 17 of 17 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
6827 3' -53.5 NC_001875.2 + 27804 0.66 0.932224
Target:  5'- gUUGGGGUU-GAUGCGGcauugGCcguugGCGGUCu -3'
miRNA:   3'- aAACUCCAAgUUGCGCCa----CG-----UGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 86657 0.66 0.926817
Target:  5'- --cGuGGUgaccgacgaccUCAACGCGGUGCugGa-- -3'
miRNA:   3'- aaaCuCCA-----------AGUUGCGCCACGugCcag -5'
6827 3' -53.5 NC_001875.2 + 91554 0.67 0.902612
Target:  5'- -gUGGGGUUUu-CGUGGUGCACaaUCa -3'
miRNA:   3'- aaACUCCAAGuuGCGCCACGUGccAG- -5'
6827 3' -53.5 NC_001875.2 + 78231 0.67 0.902612
Target:  5'- -cUGAGGcgcgUCAGauugUGCuGGUGCACGGg- -3'
miRNA:   3'- aaACUCCa---AGUU----GCG-CCACGUGCCag -5'
6827 3' -53.5 NC_001875.2 + 67163 0.67 0.902612
Target:  5'- --cGcGGgaCAGCGUGGUGgacacCGCGGUCg -3'
miRNA:   3'- aaaCuCCaaGUUGCGCCAC-----GUGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 19317 0.67 0.901954
Target:  5'- --gGGGGUgaccuacaaguacUCAauuuacguggGCGUGGUGCGCGGa- -3'
miRNA:   3'- aaaCUCCA-------------AGU----------UGCGCCACGUGCCag -5'
6827 3' -53.5 NC_001875.2 + 88156 0.67 0.895924
Target:  5'- -gUGuGGgcgcaCGACGgcaaaCGGUGCAUGGUCg -3'
miRNA:   3'- aaACuCCaa---GUUGC-----GCCACGUGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 43306 0.68 0.888988
Target:  5'- -aUGGGGUagCGGCGCGc-GCGCgGGUCg -3'
miRNA:   3'- aaACUCCAa-GUUGCGCcaCGUG-CCAG- -5'
6827 3' -53.5 NC_001875.2 + 88288 0.68 0.874385
Target:  5'- -cUGGcGggCGACGCGGUGauuguccgcacCGCGGUCg -3'
miRNA:   3'- aaACUcCaaGUUGCGCCAC-----------GUGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 33444 0.68 0.858847
Target:  5'- -gUGAGcgcGUUCAGCGCGGccgGCcagUGGUCg -3'
miRNA:   3'- aaACUC---CAAGUUGCGCCa--CGu--GCCAG- -5'
6827 3' -53.5 NC_001875.2 + 59877 0.68 0.856438
Target:  5'- -cUGAGGacgagcUUCGcggcgacaggcugcGCGCGGagcGCGCGGUCa -3'
miRNA:   3'- aaACUCC------AAGU--------------UGCGCCa--CGUGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 124201 0.68 0.850741
Target:  5'- --aGAGcGcgUCGGCGUGuGUGCGCaGGUCg -3'
miRNA:   3'- aaaCUC-Ca-AGUUGCGC-CACGUG-CCAG- -5'
6827 3' -53.5 NC_001875.2 + 127371 0.69 0.816258
Target:  5'- cUUUGAGGcugUCGACGaaauGGUGCACaccGUCa -3'
miRNA:   3'- -AAACUCCa--AGUUGCg---CCACGUGc--CAG- -5'
6827 3' -53.5 NC_001875.2 + 99994 0.7 0.778887
Target:  5'- --gGAGcGcugUUAGCGCGGUGC-UGGUCg -3'
miRNA:   3'- aaaCUC-Ca--AGUUGCGCCACGuGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 90700 0.73 0.592007
Target:  5'- -aUGGGGUUgcCGGCGCGGccGC-CGGUCa -3'
miRNA:   3'- aaACUCCAA--GUUGCGCCa-CGuGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 21693 0.76 0.45962
Target:  5'- --cGAGcg-CGACGCGGUGCuGCGGUCc -3'
miRNA:   3'- aaaCUCcaaGUUGCGCCACG-UGCCAG- -5'
6827 3' -53.5 NC_001875.2 + 44762 1.07 0.004622
Target:  5'- aUUUGAGGUUCAACGCGGUGCACGGUCu -3'
miRNA:   3'- -AAACUCCAAGUUGCGCCACGUGCCAG- -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.