miRNA display CGI


Results 1 - 20 of 68 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
26228 5' -64.1 NC_005342.2 + 44734 1.08 0.000152
Target:  5'- cCGGCCGCUCGACCGCGCGUGGCGCUGg -3'
miRNA:   3'- -GCCGGCGAGCUGGCGCGCACCGCGAC- -5'
26228 5' -64.1 NC_005342.2 + 47754 0.67 0.226909
Target:  5'- uCGGCgcguucugGCUUGcCCGCGCGcucuggcguguugGGCGCUGg -3'
miRNA:   3'- -GCCGg-------CGAGCuGGCGCGCa------------CCGCGAC- -5'
26228 5' -64.1 NC_005342.2 + 15469 0.67 0.240826
Target:  5'- gGGCUGCUCGcggcggucaccgGCgGCGCGUcaaGCGCg- -3'
miRNA:   3'- gCCGGCGAGC------------UGgCGCGCAc--CGCGac -5'
26228 5' -64.1 NC_005342.2 + 11029 0.66 0.292388
Target:  5'- gGGUCGaauuCUCGACCGC-CG-GGCGUg- -3'
miRNA:   3'- gCCGGC----GAGCUGGCGcGCaCCGCGac -5'
26228 5' -64.1 NC_005342.2 + 14155 0.72 0.099529
Target:  5'- gGGCCGCUCGuCCGgGUGcGGCaGCa- -3'
miRNA:   3'- gCCGGCGAGCuGGCgCGCaCCG-CGac -5'
26228 5' -64.1 NC_005342.2 + 10718 0.71 0.116911
Target:  5'- uGGCgGCguaUCGuACCGCGCGgcccGGCGCa- -3'
miRNA:   3'- gCCGgCG---AGC-UGGCGCGCa---CCGCGac -5'
26228 5' -64.1 NC_005342.2 + 19764 0.7 0.139642
Target:  5'- uCGGCCGCuccaacgcacgggaUCGuGCCGCGCGUugagugcgauGCGCUGc -3'
miRNA:   3'- -GCCGGCG--------------AGC-UGGCGCGCAc---------CGCGAC- -5'
26228 5' -64.1 NC_005342.2 + 31325 0.69 0.164644
Target:  5'- aGcGCCGuCUCGGCCGC-UGUGGcCGCg- -3'
miRNA:   3'- gC-CGGC-GAGCUGGCGcGCACC-GCGac -5'
26228 5' -64.1 NC_005342.2 + 2004 0.68 0.202139
Target:  5'- aCGGCCGCgUCGAucacaucgacgcCCGCGCGguaGaGUGCg- -3'
miRNA:   3'- -GCCGGCG-AGCU------------GGCGCGCa--C-CGCGac -5'
26228 5' -64.1 NC_005342.2 + 9604 0.68 0.218014
Target:  5'- cCGGCUGC-CGGCgGCGCGccuGCGCc- -3'
miRNA:   3'- -GCCGGCGaGCUGgCGCGCac-CGCGac -5'
26228 5' -64.1 NC_005342.2 + 29638 0.68 0.202139
Target:  5'- uCGGCCGCUUuGCCGUGCGccucgaaaauGCGCg- -3'
miRNA:   3'- -GCCGGCGAGcUGGCGCGCac--------CGCGac -5'
26228 5' -64.1 NC_005342.2 + 44326 0.68 0.197074
Target:  5'- cCGuGCCGCUgCcGCCGCGCGagcaGGCGUa- -3'
miRNA:   3'- -GC-CGGCGA-GcUGGCGCGCa---CCGCGac -5'
26228 5' -64.1 NC_005342.2 + 28480 0.77 0.044941
Target:  5'- aGcGCCGCgUCGACCGCGCGggucgcggcGGCGCg- -3'
miRNA:   3'- gC-CGGCG-AGCUGGCGCGCa--------CCGCGac -5'
26228 5' -64.1 NC_005342.2 + 38937 0.68 0.205231
Target:  5'- uCGGCCgagcugcgugcaauGCUCGACCGCaccccgaGCGgccggcaGGCGCa- -3'
miRNA:   3'- -GCCGG--------------CGAGCUGGCG-------CGCa------CCGCGac -5'
26228 5' -64.1 NC_005342.2 + 30944 0.73 0.086937
Target:  5'- cCGGUCGCgaCGGCCGCGC--GGCGCa- -3'
miRNA:   3'- -GCCGGCGa-GCUGGCGCGcaCCGCGac -5'
26228 5' -64.1 NC_005342.2 + 20511 0.68 0.197074
Target:  5'- cCGGCCGC-CG-CCGCGCcGUu-CGCUGg -3'
miRNA:   3'- -GCCGGCGaGCuGGCGCG-CAccGCGAC- -5'
26228 5' -64.1 NC_005342.2 + 9129 0.68 0.212607
Target:  5'- -uGCCuGCUCGACCGCaGC-UGcGCGCUu -3'
miRNA:   3'- gcCGG-CGAGCUGGCG-CGcAC-CGCGAc -5'
26228 5' -64.1 NC_005342.2 + 28711 0.67 0.22918
Target:  5'- gCGGCCGCcggaUCGGCgUGUGCGUcGCGUg- -3'
miRNA:   3'- -GCCGGCG----AGCUG-GCGCGCAcCGCGac -5'
26228 5' -64.1 NC_005342.2 + 24205 0.73 0.089328
Target:  5'- cCGGCCGCcUGGCCGC-CGUaaaacGGCGCUu -3'
miRNA:   3'- -GCCGGCGaGCUGGCGcGCA-----CCGCGAc -5'
26228 5' -64.1 NC_005342.2 + 5020 0.71 0.13003
Target:  5'- gCGGCCgGCUguUGGCCGacgucgGCGcGGCGCUGa -3'
miRNA:   3'- -GCCGG-CGA--GCUGGCg-----CGCaCCGCGAC- -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.