miRNA display CGI


Results 1 - 20 of 46 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
12388 3' -56.2 NC_003324.1 + 44528 1.07 0.001117
Target:  5'- uUUCAAACGCCGGCCAUCAGCGACCGAa -3'
miRNA:   3'- -AAGUUUGCGGCCGGUAGUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 77 0.76 0.175354
Target:  5'- cUUAuGCGCCGGCCGUCgAGCuGACCa- -3'
miRNA:   3'- aAGUuUGCGGCCGGUAG-UCG-CUGGcu -5'
12388 3' -56.2 NC_003324.1 + 42862 0.76 0.175354
Target:  5'- aUUCGAGgcUGCCGGCCGgcccgcgaggaUCuGCGACCGAg -3'
miRNA:   3'- -AAGUUU--GCGGCCGGU-----------AGuCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 29424 0.75 0.206062
Target:  5'- aUCAggUGCCGGUCgaaaaccucucgGUCAGCGGCCu- -3'
miRNA:   3'- aAGUuuGCGGCCGG------------UAGUCGCUGGcu -5'
12388 3' -56.2 NC_003324.1 + 25698 0.74 0.254139
Target:  5'- aUCAgcAGCcguGCCGGCgCAgCAGCGGCCGAc -3'
miRNA:   3'- aAGU--UUG---CGGCCG-GUaGUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 51700 0.72 0.303439
Target:  5'- gUCGAGCGCCuGCaggaUAUCAGCGagGCCGAc -3'
miRNA:   3'- aAGUUUGCGGcCG----GUAGUCGC--UGGCU- -5'
12388 3' -56.2 NC_003324.1 + 47985 0.72 0.311054
Target:  5'- -gCGGAUaaGCCGGCCAUCGGCGcaGCaCGGu -3'
miRNA:   3'- aaGUUUG--CGGCCGGUAGUCGC--UG-GCU- -5'
12388 3' -56.2 NC_003324.1 + 18092 0.71 0.351293
Target:  5'- ---uGGCGCCGGCCaAUCgguauccgaAGCGAUCGAc -3'
miRNA:   3'- aaguUUGCGGCCGG-UAG---------UCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 6600 0.71 0.368392
Target:  5'- -gCAGAC-CCuGCCGuggcUCAGCGGCCGAg -3'
miRNA:   3'- aaGUUUGcGGcCGGU----AGUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 49205 0.7 0.404265
Target:  5'- aUCGAGCgGCCcGCCAUCuuGGCGAUCGc -3'
miRNA:   3'- aAGUUUG-CGGcCGGUAG--UCGCUGGCu -5'
12388 3' -56.2 NC_003324.1 + 18982 0.7 0.404265
Target:  5'- gUUCGAGCGCgCaGCCGaacGCGACCGAg -3'
miRNA:   3'- -AAGUUUGCG-GcCGGUaguCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 8871 0.7 0.413572
Target:  5'- -gCGAACuGUaCGGCCAUCAGCGGCa-- -3'
miRNA:   3'- aaGUUUG-CG-GCCGGUAGUCGCUGgcu -5'
12388 3' -56.2 NC_003324.1 + 55376 0.69 0.442266
Target:  5'- aUUCGAGCGCCuuauccggaaGCCAaaauUCAGCG-CCGAa -3'
miRNA:   3'- -AAGUUUGCGGc---------CGGU----AGUCGCuGGCU- -5'
12388 3' -56.2 NC_003324.1 + 2510 0.69 0.442266
Target:  5'- -aCAAGcCGCCGG-CGUCGGCGGCUu- -3'
miRNA:   3'- aaGUUU-GCGGCCgGUAGUCGCUGGcu -5'
12388 3' -56.2 NC_003324.1 + 4472 0.69 0.462008
Target:  5'- aUUCAGGCGCCGGaugcggcucaCAUCcucuacggcGGCGACgCGAc -3'
miRNA:   3'- -AAGUUUGCGGCCg---------GUAG---------UCGCUG-GCU- -5'
12388 3' -56.2 NC_003324.1 + 52273 0.69 0.462008
Target:  5'- aUCGGGCgguGCCGGUCAUCAGCuuGCCu- -3'
miRNA:   3'- aAGUUUG---CGGCCGGUAGUCGc-UGGcu -5'
12388 3' -56.2 NC_003324.1 + 21945 0.69 0.472051
Target:  5'- --uGGAUGCgGGCCucucGUCGGCGGCgCGAu -3'
miRNA:   3'- aagUUUGCGgCCGG----UAGUCGCUG-GCU- -5'
12388 3' -56.2 NC_003324.1 + 52377 0.69 0.481184
Target:  5'- -gCAGACGCCGGCCGccccgaaUCGgGCGGuaGAa -3'
miRNA:   3'- aaGUUUGCGGCCGGU-------AGU-CGCUggCU- -5'
12388 3' -56.2 NC_003324.1 + 29538 0.69 0.486295
Target:  5'- -cCAGGCgGCCGuGUCAUCgucgagggggagaauGGCGACCGGu -3'
miRNA:   3'- aaGUUUG-CGGC-CGGUAG---------------UCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 31105 0.68 0.502818
Target:  5'- -cCGAccGCGCCGGUCGcuaccaAGCGAUCGAc -3'
miRNA:   3'- aaGUU--UGCGGCCGGUag----UCGCUGGCU- -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.