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
1661 3' -57.9 NC_001347.2 + 84988 0.67 0.90586
Target:  5'- --cAGGAgCgGGAUGUGGUCGCaGUgGAa -3'
miRNA:   3'- gcaUCCU-GgUCUGCACCAGCG-CGgCU- -5'
1661 3' -57.9 NC_001347.2 + 197541 0.67 0.893689
Target:  5'- -uUGGGACCGcagcguggccGGCGUGG-CG-GCCGAc -3'
miRNA:   3'- gcAUCCUGGU----------CUGCACCaGCgCGGCU- -5'
1661 3' -57.9 NC_001347.2 + 69218 0.68 0.866901
Target:  5'- aGUccGGGA-UAGACGUGGUCGCcuGCgGGa -3'
miRNA:   3'- gCA--UCCUgGUCUGCACCAGCG--CGgCU- -5'
1661 3' -57.9 NC_001347.2 + 83856 0.68 0.866191
Target:  5'- ---uGGGCCAuguuuacGACGU-GUCGCGCCGu -3'
miRNA:   3'- gcauCCUGGU-------CUGCAcCAGCGCGGCu -5'
1661 3' -57.9 NC_001347.2 + 100295 0.68 0.859717
Target:  5'- uCGUccAGGugCAGGCugaGGUCGCGCgGc -3'
miRNA:   3'- -GCA--UCCugGUCUGca-CCAGCGCGgCu -5'
1661 3' -57.9 NC_001347.2 + 78353 0.68 0.852347
Target:  5'- gGgcGGACCcGGCGUGGUgggacccggCGgCGCCGu -3'
miRNA:   3'- gCauCCUGGuCUGCACCA---------GC-GCGGCu -5'
1661 3' -57.9 NC_001347.2 + 156811 0.68 0.844798
Target:  5'- gCGgcGGGCCAgGACGUcggaGGguccgCGCGUCGGc -3'
miRNA:   3'- -GCauCCUGGU-CUGCA----CCa----GCGCGGCU- -5'
1661 3' -57.9 NC_001347.2 + 8180 0.68 0.844798
Target:  5'- gGUGGGGCCgGGACGgggugGGaCGagaGCCGGu -3'
miRNA:   3'- gCAUCCUGG-UCUGCa----CCaGCg--CGGCU- -5'
1661 3' -57.9 NC_001347.2 + 153744 0.68 0.844798
Target:  5'- aCGUGGcaaaauACCGGGuCG-GGUCGCGCCa- -3'
miRNA:   3'- -GCAUCc-----UGGUCU-GCaCCAGCGCGGcu -5'
1661 3' -57.9 NC_001347.2 + 134891 0.68 0.829184
Target:  5'- gGUGGGA-CGGuCGUGGUcuccucggccCGUGCCGGg -3'
miRNA:   3'- gCAUCCUgGUCuGCACCA----------GCGCGGCU- -5'
1661 3' -57.9 NC_001347.2 + 182406 0.68 0.829184
Target:  5'- aCGU-GGACgCGGGCGUGGugguUCGUGUgGAu -3'
miRNA:   3'- -GCAuCCUG-GUCUGCACC----AGCGCGgCU- -5'
1661 3' -57.9 NC_001347.2 + 134981 0.69 0.821131
Target:  5'- gCGUGGaGCCcacggGGACGUGcGuUCGUGCCGGg -3'
miRNA:   3'- -GCAUCcUGG-----UCUGCAC-C-AGCGCGGCU- -5'
1661 3' -57.9 NC_001347.2 + 144933 0.69 0.812923
Target:  5'- --cAGGACCaAGACGUGGUgGaCGUgGGu -3'
miRNA:   3'- gcaUCCUGG-UCUGCACCAgC-GCGgCU- -5'
1661 3' -57.9 NC_001347.2 + 152668 0.7 0.75174
Target:  5'- aCGgcGuGACaCAGcacgcugauaacGCGUGGUCGCGCaCGAu -3'
miRNA:   3'- -GCauC-CUG-GUC------------UGCACCAGCGCG-GCU- -5'
1661 3' -57.9 NC_001347.2 + 161634 0.71 0.71452
Target:  5'- cCGccuGGACCAugucgacccgcGGCGUGGaCGCGCCGu -3'
miRNA:   3'- -GCau-CCUGGU-----------CUGCACCaGCGCGGCu -5'
1661 3' -57.9 NC_001347.2 + 40665 0.75 0.49482
Target:  5'- -uUGGGGCCggGGACGggGGUUGCGCUGGg -3'
miRNA:   3'- gcAUCCUGG--UCUGCa-CCAGCGCGGCU- -5'
1661 3' -57.9 NC_001347.2 + 115621 1.09 0.003555
Target:  5'- aCGUAGGACCAGACGUGGUCGCGCCGAu -3'
miRNA:   3'- -GCAUCCUGGUCUGCACCAGCGCGGCU- -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.