miRNA display CGI


Results 1 - 20 of 24 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
11978 3' -56.9 NC_003278.1 + 22184 0.66 0.478244
Target:  5'- gGCcAGGCCgaccCGgUGUCAGCCaUCUGc -3'
miRNA:   3'- gCGuUCCGGau--GCgGUAGUCGG-AGAC- -5'
11978 3' -56.9 NC_003278.1 + 9363 0.66 0.478244
Target:  5'- gCGcCGAGGCCaGCG-CGUgAGCCUuCUGc -3'
miRNA:   3'- -GC-GUUCCGGaUGCgGUAgUCGGA-GAC- -5'
11978 3' -56.9 NC_003278.1 + 10478 0.66 0.478244
Target:  5'- gGCAGGGCCgauucuccGCGCCcUCgAGCCa--- -3'
miRNA:   3'- gCGUUCCGGa-------UGCGGuAG-UCGGagac -5'
11978 3' -56.9 NC_003278.1 + 28230 0.66 0.467813
Target:  5'- gGCGuaccuGGCCcAUGCCcgCGGCUUCg- -3'
miRNA:   3'- gCGUu----CCGGaUGCGGuaGUCGGAGac -5'
11978 3' -56.9 NC_003278.1 + 13142 0.66 0.467813
Target:  5'- gGCGAuGCCUcgGCCGUCAGCCcaUCg- -3'
miRNA:   3'- gCGUUcCGGAugCGGUAGUCGG--AGac -5'
11978 3' -56.9 NC_003278.1 + 30564 0.66 0.44731
Target:  5'- gCGCAGGGUUgcCG-CGUCGGCCaccuUCUGg -3'
miRNA:   3'- -GCGUUCCGGauGCgGUAGUCGG----AGAC- -5'
11978 3' -56.9 NC_003278.1 + 9516 0.66 0.437247
Target:  5'- gGC-GGGCCUGCGCCAggUCGaugcGCUgcugCUGu -3'
miRNA:   3'- gCGuUCCGGAUGCGGU--AGU----CGGa---GAC- -5'
11978 3' -56.9 NC_003278.1 + 29508 0.67 0.417519
Target:  5'- uGCAGGGUCUucaGgCG-CAGCUUCUGg -3'
miRNA:   3'- gCGUUCCGGAug-CgGUaGUCGGAGAC- -5'
11978 3' -56.9 NC_003278.1 + 18649 0.67 0.395516
Target:  5'- gGCAAGGaCCUgcucgaggcacagcGCaagGCCAUCGGCCUgUa -3'
miRNA:   3'- gCGUUCC-GGA--------------UG---CGGUAGUCGGAgAc -5'
11978 3' -56.9 NC_003278.1 + 29750 0.68 0.379741
Target:  5'- gGC-GGGCCUGCGCCGcuGGCUgacccagCUGu -3'
miRNA:   3'- gCGuUCCGGAUGCGGUagUCGGa------GAC- -5'
11978 3' -56.9 NC_003278.1 + 20309 0.68 0.378826
Target:  5'- aGCAGGGCCgugGCGguggugaCCGUCuccAGgCUCUGg -3'
miRNA:   3'- gCGUUCCGGa--UGC-------GGUAG---UCgGAGAC- -5'
11978 3' -56.9 NC_003278.1 + 29700 0.68 0.36173
Target:  5'- gGCAccGGCCU-CGCCggUGGCCUCg- -3'
miRNA:   3'- gCGUu-CCGGAuGCGGuaGUCGGAGac -5'
11978 3' -56.9 NC_003278.1 + 12967 0.68 0.36173
Target:  5'- aCGuCAAGGCCUG-GUCAUCcAGCCUg-- -3'
miRNA:   3'- -GC-GUUCCGGAUgCGGUAG-UCGGAgac -5'
11978 3' -56.9 NC_003278.1 + 21465 0.68 0.335846
Target:  5'- -cCAGGGCCUcgGCGCCGgccaggcCGGCCcgCUGg -3'
miRNA:   3'- gcGUUCCGGA--UGCGGUa------GUCGGa-GAC- -5'
11978 3' -56.9 NC_003278.1 + 6181 0.68 0.335846
Target:  5'- aGCAAcgacGCCUACGUCGUCgaggacuacGGCCUCg- -3'
miRNA:   3'- gCGUUc---CGGAUGCGGUAG---------UCGGAGac -5'
11978 3' -56.9 NC_003278.1 + 32919 0.69 0.319355
Target:  5'- aCGCAcuGGCCUGUGCCAUgGGCa-CUGg -3'
miRNA:   3'- -GCGUu-CCGGAUGCGGUAgUCGgaGAC- -5'
11978 3' -56.9 NC_003278.1 + 19696 0.69 0.288217
Target:  5'- gCGCcuGGCUguugaugGCGCCAUUGGCCgcCUGg -3'
miRNA:   3'- -GCGuuCCGGa------UGCGGUAGUCGGa-GAC- -5'
11978 3' -56.9 NC_003278.1 + 21646 0.7 0.266466
Target:  5'- gGCAAGagcGCCgGCGCCAUCGguGCC-CUGg -3'
miRNA:   3'- gCGUUC---CGGaUGCGGUAGU--CGGaGAC- -5'
11978 3' -56.9 NC_003278.1 + 7973 0.71 0.220891
Target:  5'- cCGCcacGGCC-GCGCCAUCaugGGCCUCg- -3'
miRNA:   3'- -GCGuu-CCGGaUGCGGUAG---UCGGAGac -5'
11978 3' -56.9 NC_003278.1 + 17334 0.73 0.177608
Target:  5'- aGCAAGGCCUucaugccgguguacuUGCCAUCGGCg-CUGa -3'
miRNA:   3'- gCGUUCCGGAu--------------GCGGUAGUCGgaGAC- -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.