miRNA display CGI


Results 1 - 20 of 25 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
2788 5' -53.8 NC_001491.2 + 147922 0.66 0.946545
Target:  5'- cGCGCCGAgagcCGCCGGggcgggaggccGGGAGUCCg--- -3'
miRNA:   3'- uCGUGGUU----GCGGUU-----------CCCUUAGGguuu -5'
2788 5' -53.8 NC_001491.2 + 145410 0.66 0.937012
Target:  5'- aAGCuggaGCCGgagcggguGCGCCGGGGGAAgcggCgCCGGAg -3'
miRNA:   3'- -UCG----UGGU--------UGCGGUUCCCUUa---G-GGUUU- -5'
2788 5' -53.8 NC_001491.2 + 26575 0.66 0.936508
Target:  5'- aAGCACCGugcgguaaccgcuGCGCCAuccaGGGGAAaauugcgcUCCUGGu -3'
miRNA:   3'- -UCGUGGU-------------UGCGGU----UCCCUU--------AGGGUUu -5'
2788 5' -53.8 NC_001491.2 + 105416 0.67 0.920795
Target:  5'- cAGUACCGACccguccucggugGUCAGGGGGAcCCUAGu -3'
miRNA:   3'- -UCGUGGUUG------------CGGUUCCCUUaGGGUUu -5'
2788 5' -53.8 NC_001491.2 + 143703 0.67 0.920795
Target:  5'- aAGCGCgucGCGCCAAcGGGAUgCCGAAu -3'
miRNA:   3'- -UCGUGgu-UGCGGUUcCCUUAgGGUUU- -5'
2788 5' -53.8 NC_001491.2 + 61486 0.67 0.920795
Target:  5'- cAGCGCUGuGCGCCGcuGGAGUCCgGGu -3'
miRNA:   3'- -UCGUGGU-UGCGGUucCCUUAGGgUUu -5'
2788 5' -53.8 NC_001491.2 + 134625 0.67 0.908703
Target:  5'- uGuCGCCAGCGCaaccggGAGGGGuUUCCAAAa -3'
miRNA:   3'- uC-GUGGUUGCGg-----UUCCCUuAGGGUUU- -5'
2788 5' -53.8 NC_001491.2 + 147167 0.67 0.902276
Target:  5'- cGGCGCCucCGCCGcucuGGGAGUgCUggGg -3'
miRNA:   3'- -UCGUGGuuGCGGUu---CCCUUAgGGuuU- -5'
2788 5' -53.8 NC_001491.2 + 64020 0.68 0.866466
Target:  5'- cAGCGCCGgcgGCGCCGAGaacGAGcguUCCCAc- -3'
miRNA:   3'- -UCGUGGU---UGCGGUUCc--CUU---AGGGUuu -5'
2788 5' -53.8 NC_001491.2 + 65487 0.68 0.858602
Target:  5'- uGGCGCCAcaggUGCCAgccGGGGAAgcCCCGGg -3'
miRNA:   3'- -UCGUGGUu---GCGGU---UCCCUUa-GGGUUu -5'
2788 5' -53.8 NC_001491.2 + 83798 0.69 0.842222
Target:  5'- gAGCACUuuuuccugAGCGCCcuuacGGGGAGUUCCGc- -3'
miRNA:   3'- -UCGUGG--------UUGCGGu----UCCCUUAGGGUuu -5'
2788 5' -53.8 NC_001491.2 + 144308 0.69 0.833721
Target:  5'- cGCGCCGAgcucCGCCGAGGcaGAAgccgCCCGGGu -3'
miRNA:   3'- uCGUGGUU----GCGGUUCC--CUUa---GGGUUU- -5'
2788 5' -53.8 NC_001491.2 + 49494 0.69 0.807071
Target:  5'- aGGCcgGCCAugGCCGuugccgccGGGGccGUCCCGGAc -3'
miRNA:   3'- -UCG--UGGUugCGGU--------UCCCu-UAGGGUUU- -5'
2788 5' -53.8 NC_001491.2 + 114477 0.7 0.797835
Target:  5'- gAGC-CCGACGCCGAGGccGAGcCCCu-- -3'
miRNA:   3'- -UCGuGGUUGCGGUUCC--CUUaGGGuuu -5'
2788 5' -53.8 NC_001491.2 + 58074 0.7 0.788438
Target:  5'- gAGUGUCGAUGCCGGGGGggUgucCCCGGGg -3'
miRNA:   3'- -UCGUGGUUGCGGUUCCCuuA---GGGUUU- -5'
2788 5' -53.8 NC_001491.2 + 68919 0.7 0.75938
Target:  5'- cAGCuCCAACaCCAGGGcGGAUCCCc-- -3'
miRNA:   3'- -UCGuGGUUGcGGUUCC-CUUAGGGuuu -5'
2788 5' -53.8 NC_001491.2 + 148158 0.71 0.738375
Target:  5'- cAGCACCAggagcuuGCGCCuGGcGGAG-CCCAGg -3'
miRNA:   3'- -UCGUGGU-------UGCGGuUC-CCUUaGGGUUu -5'
2788 5' -53.8 NC_001491.2 + 115154 0.72 0.666782
Target:  5'- cGGCcCuCAACGCCcAGGGggUCCUg-- -3'
miRNA:   3'- -UCGuG-GUUGCGGuUCCCuuAGGGuuu -5'
2788 5' -53.8 NC_001491.2 + 17915 0.72 0.656211
Target:  5'- cGGCGCCAuuguugacggaaGCGCCGGGGGucauGUCUgGGAg -3'
miRNA:   3'- -UCGUGGU------------UGCGGUUCCCu---UAGGgUUU- -5'
2788 5' -53.8 NC_001491.2 + 43098 0.73 0.624409
Target:  5'- cGCGCCAGCacgguaaaggugGCCAGGGGGuUUCCGGGa -3'
miRNA:   3'- uCGUGGUUG------------CGGUUCCCUuAGGGUUU- -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.