miRNA display CGI


Results 1 - 16 of 16 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
20574 5' -58.5 NC_004688.1 + 79944 0.66 0.734035
Target:  5'- aGGCcGGGCCC-GCCCGgA---UCGAc -3'
miRNA:   3'- aCCGaCCUGGGuCGGGCgUugaAGCU- -5'
20574 5' -58.5 NC_004688.1 + 26472 0.66 0.714057
Target:  5'- aGGCaggGGACCCGGCCgaCGCGaauGCUg--- -3'
miRNA:   3'- aCCGa--CCUGGGUCGG--GCGU---UGAagcu -5'
20574 5' -58.5 NC_004688.1 + 105718 0.66 0.693794
Target:  5'- cGGUagaUGuucgaaucGGCCCGGCCCGCAuuGCggCGGg -3'
miRNA:   3'- aCCG---AC--------CUGGGUCGGGCGU--UGaaGCU- -5'
20574 5' -58.5 NC_004688.1 + 109008 0.66 0.693794
Target:  5'- aGGaUGGugCCAgGCCCGCGG-UUCGc -3'
miRNA:   3'- aCCgACCugGGU-CGGGCGUUgAAGCu -5'
20574 5' -58.5 NC_004688.1 + 86674 0.67 0.67332
Target:  5'- cGGUgcccgGGGCCCcGCCCGUgggGAUcUCGGg -3'
miRNA:   3'- aCCGa----CCUGGGuCGGGCG---UUGaAGCU- -5'
20574 5' -58.5 NC_004688.1 + 65654 0.67 0.652709
Target:  5'- -uGCgucucuuGCCCGGCCCGCAACUcuUUGAu -3'
miRNA:   3'- acCGacc----UGGGUCGGGCGUUGA--AGCU- -5'
20574 5' -58.5 NC_004688.1 + 57371 0.67 0.652709
Target:  5'- gGGCUGGACCCGGgggUUGCGAggUUGGu -3'
miRNA:   3'- aCCGACCUGGGUCg--GGCGUUgaAGCU- -5'
20574 5' -58.5 NC_004688.1 + 19156 0.67 0.652709
Target:  5'- aGGCguuccGGACCCAGgCCG-AACcguugUCGAg -3'
miRNA:   3'- aCCGa----CCUGGGUCgGGCgUUGa----AGCU- -5'
20574 5' -58.5 NC_004688.1 + 41970 0.67 0.632031
Target:  5'- aGGCgUGGGCCCuacuGCCgGUAACgcaGAc -3'
miRNA:   3'- aCCG-ACCUGGGu---CGGgCGUUGaagCU- -5'
20574 5' -58.5 NC_004688.1 + 9999 0.68 0.611352
Target:  5'- cGGCUGGAUCUAaaggcggugccGCCCGaCGGCaaUCGGa -3'
miRNA:   3'- aCCGACCUGGGU-----------CGGGC-GUUGa-AGCU- -5'
20574 5' -58.5 NC_004688.1 + 6360 0.68 0.611352
Target:  5'- gGaGCUGGACagCGGaCCCGgCGACUUCa- -3'
miRNA:   3'- aC-CGACCUGg-GUC-GGGC-GUUGAAGcu -5'
20574 5' -58.5 NC_004688.1 + 56452 0.68 0.579448
Target:  5'- aGGCUGGaguggugGCCCGGCCgGUcuCggCGAu -3'
miRNA:   3'- aCCGACC-------UGGGUCGGgCGuuGaaGCU- -5'
20574 5' -58.5 NC_004688.1 + 18861 0.69 0.519904
Target:  5'- gGGCgGGcauACCCAGCuuGuCAGCcUCGAa -3'
miRNA:   3'- aCCGaCC---UGGGUCGggC-GUUGaAGCU- -5'
20574 5' -58.5 NC_004688.1 + 37277 0.7 0.490542
Target:  5'- -uGCgGGGCCgGGCCCGCGGgUcaUCGAu -3'
miRNA:   3'- acCGaCCUGGgUCGGGCGUUgA--AGCU- -5'
20574 5' -58.5 NC_004688.1 + 81170 0.7 0.480926
Target:  5'- cGGCUGGggaucACCCGGCCgccaCAACUUCa- -3'
miRNA:   3'- aCCGACC-----UGGGUCGGgc--GUUGAAGcu -5'
20574 5' -58.5 NC_004688.1 + 34940 0.71 0.433402
Target:  5'- cUGGCacgagUGGgaagaccGCCCAGCCCGCccuCUUCGc -3'
miRNA:   3'- -ACCG-----ACC-------UGGGUCGGGCGuu-GAAGCu -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.