miRNA display CGI


Results 1 - 20 of 28 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
11315 5' -55.9 NC_003084.1 + 65847 0.78 0.243084
Target:  5'- aAGGugCACCCGCcCGACGgguuAGCUGg -3'
miRNA:   3'- -UCCugGUGGGCGuGCUGUagu-UCGAC- -5'
11315 5' -55.9 NC_003084.1 + 27419 0.67 0.806204
Target:  5'- --aGCCACCCGUugGAauCGUUggGCg- -3'
miRNA:   3'- uccUGGUGGGCGugCU--GUAGuuCGac -5'
11315 5' -55.9 NC_003084.1 + 26494 0.67 0.805294
Target:  5'- cGGAugcagccuuuuCCACCCGUauaaacACGGCcgaggugagcgaaAUCGAGCUGg -3'
miRNA:   3'- uCCU-----------GGUGGGCG------UGCUG-------------UAGUUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 64794 0.67 0.767612
Target:  5'- gAGGGCCACCgugagguUGUGCGGC-UCAAGUUc -3'
miRNA:   3'- -UCCUGGUGG-------GCGUGCUGuAGUUCGAc -5'
11315 5' -55.9 NC_003084.1 + 49591 0.67 0.75883
Target:  5'- cGGcACCACCCGCuCGugGUacgauuuguaCAAGCa- -3'
miRNA:   3'- uCC-UGGUGGGCGuGCugUA----------GUUCGac -5'
11315 5' -55.9 NC_003084.1 + 2108 0.67 0.75883
Target:  5'- cAGccCCGCCCGCACaACAUUGgAGCUGu -3'
miRNA:   3'- -UCcuGGUGGGCGUGcUGUAGU-UCGAC- -5'
11315 5' -55.9 NC_003084.1 + 19912 0.68 0.748961
Target:  5'- cGGGACCAUCguUGCAcCGAUuUCAaaGGCUGa -3'
miRNA:   3'- -UCCUGGUGG--GCGU-GCUGuAGU--UCGAC- -5'
11315 5' -55.9 NC_003084.1 + 94939 0.68 0.732948
Target:  5'- gAGGGCCACCaccggauccaccuugCGCugGACGauGAGCg- -3'
miRNA:   3'- -UCCUGGUGG---------------GCGugCUGUagUUCGac -5'
11315 5' -55.9 NC_003084.1 + 101530 0.68 0.718741
Target:  5'- aGGGACCGgUCGaACcGCAUCAAGCUc -3'
miRNA:   3'- -UCCUGGUgGGCgUGcUGUAGUUCGAc -5'
11315 5' -55.9 NC_003084.1 + 47783 0.68 0.708497
Target:  5'- cAGGugUACUCuuucaGCACGGCGUUggGCa- -3'
miRNA:   3'- -UCCugGUGGG-----CGUGCUGUAGuuCGac -5'
11315 5' -55.9 NC_003084.1 + 44439 0.72 0.481575
Target:  5'- gAGGACCACCacaGCAUGAUA--GAGUUGu -3'
miRNA:   3'- -UCCUGGUGGg--CGUGCUGUagUUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 10002 0.7 0.614378
Target:  5'- cGGACCAgUUGCGCGAUuUCAuggcacaggAGCUGa -3'
miRNA:   3'- uCCUGGUgGGCGUGCUGuAGU---------UCGAC- -5'
11315 5' -55.9 NC_003084.1 + 74786 0.7 0.614378
Target:  5'- cGGGCCGCCCGCACcuuccGCugguUCAGGUc- -3'
miRNA:   3'- uCCUGGUGGGCGUGc----UGu---AGUUCGac -5'
11315 5' -55.9 NC_003084.1 + 53228 0.7 0.624896
Target:  5'- uGGACCuuuucaCCGCACGACcgugaCGAGUUGg -3'
miRNA:   3'- uCCUGGug----GGCGUGCUGua---GUUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 76692 0.7 0.635419
Target:  5'- gAGGACgACCCGgGCGACG---AGUUGu -3'
miRNA:   3'- -UCCUGgUGGGCgUGCUGUaguUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 9349 0.69 0.666937
Target:  5'- cGGugCGCCCaGCuCGGCAgcgaCAAGUUGa -3'
miRNA:   3'- uCCugGUGGG-CGuGCUGUa---GUUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 10795 0.68 0.708497
Target:  5'- cGGGaACCACCUcgagcaGCGCaACcgCGAGCUGa -3'
miRNA:   3'- -UCC-UGGUGGG------CGUGcUGuaGUUCGAC- -5'
11315 5' -55.9 NC_003084.1 + 102200 0.66 0.844492
Target:  5'- gGGGGCCACCCGguaCAgGugGUCGuacgugcccgccauuAGCa- -3'
miRNA:   3'- -UCCUGGUGGGC---GUgCugUAGU---------------UCGac -5'
11315 5' -55.9 NC_003084.1 + 22220 0.73 0.434138
Target:  5'- uGGugCGCCUGCugGACucgguuAUCGAGCg- -3'
miRNA:   3'- uCCugGUGGGCGugCUG------UAGUUCGac -5'
11315 5' -55.9 NC_003084.1 + 42690 0.72 0.491365
Target:  5'- gGGGugCGCCUG-ACgGACAUCGAGCg- -3'
miRNA:   3'- -UCCugGUGGGCgUG-CUGUAGUUCGac -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.