miRNA display CGI


Results 1 - 20 of 20 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
16629 3' -54.9 NC_004156.1 + 192926 0.66 0.967794
Target:  5'- cGGUagACUGGUGGCGGCAGCGCuCAcCAc -3'
miRNA:   3'- -CCGa-UGACUGUUGUCGUCGCG-GUcGU- -5'
16629 3' -54.9 NC_004156.1 + 140259 0.66 0.964626
Target:  5'- uGGCga-UGACAACAcCAaacuCGCCGGCAu -3'
miRNA:   3'- -CCGaugACUGUUGUcGUc---GCGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 66334 0.66 0.964626
Target:  5'- aGC-ACUGACAACA--AGUGCCAGa- -3'
miRNA:   3'- cCGaUGACUGUUGUcgUCGCGGUCgu -5'
16629 3' -54.9 NC_004156.1 + 124336 0.66 0.961245
Target:  5'- uGGCgu----CGGCGGCGGCGUCGGUg -3'
miRNA:   3'- -CCGaugacuGUUGUCGUCGCGGUCGu -5'
16629 3' -54.9 NC_004156.1 + 71296 0.66 0.961245
Target:  5'- uGGCUAUaaUGGCAAUGGCaauggaGGUGgCAGCu -3'
miRNA:   3'- -CCGAUG--ACUGUUGUCG------UCGCgGUCGu -5'
16629 3' -54.9 NC_004156.1 + 145959 0.66 0.957647
Target:  5'- uGGCUAC--AgGACGGguGCG-CAGCAc -3'
miRNA:   3'- -CCGAUGacUgUUGUCguCGCgGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 4544 0.67 0.949364
Target:  5'- aGGCUACcauuagaugguagUGcUAGgAGUAGUGCUAGCAa -3'
miRNA:   3'- -CCGAUG-------------ACuGUUgUCGUCGCGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 191863 0.67 0.949364
Target:  5'- gGGCUAaUGAucaccacCAACGGUAGCGUCAuGUAc -3'
miRNA:   3'- -CCGAUgACU-------GUUGUCGUCGCGGU-CGU- -5'
16629 3' -54.9 NC_004156.1 + 89094 0.67 0.947243
Target:  5'- aGGCaACguuGCGAUAGCAGCgacaacgagucuguuGCCAGUAg -3'
miRNA:   3'- -CCGaUGac-UGUUGUCGUCG---------------CGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 215543 0.67 0.945506
Target:  5'- gGGCUuGCUGACAACGGUggauguAGUGUUuuuguGCAg -3'
miRNA:   3'- -CCGA-UGACUGUUGUCG------UCGCGGu----CGU- -5'
16629 3' -54.9 NC_004156.1 + 114726 0.68 0.909001
Target:  5'- -uCUACUGGCAgugguuGCGGUGGUGCUAGUc -3'
miRNA:   3'- ccGAUGACUGU------UGUCGUCGCGGUCGu -5'
16629 3' -54.9 NC_004156.1 + 80514 0.68 0.902845
Target:  5'- cGGCUACUGguGCGaguacuggcccAgAGCAGaGCCAGCc -3'
miRNA:   3'- -CCGAUGAC--UGU-----------UgUCGUCgCGGUCGu -5'
16629 3' -54.9 NC_004156.1 + 148743 0.68 0.896456
Target:  5'- uGGCUGC-GAUggUAGUAGCccGCCAGa- -3'
miRNA:   3'- -CCGAUGaCUGuuGUCGUCG--CGGUCgu -5'
16629 3' -54.9 NC_004156.1 + 206327 0.69 0.88984
Target:  5'- uGGCUccAgUGACAGCAccgguacCAGUGCCGGUAc -3'
miRNA:   3'- -CCGA--UgACUGUUGUc------GUCGCGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 90033 0.7 0.845589
Target:  5'- cGGC-ACUGGCAcaccCAGCGGUGUacuCGGCAg -3'
miRNA:   3'- -CCGaUGACUGUu---GUCGUCGCG---GUCGU- -5'
16629 3' -54.9 NC_004156.1 + 1797 0.7 0.845589
Target:  5'- cGCUACUaGCAgugguaGCAGUuGCGCUAGCGc -3'
miRNA:   3'- cCGAUGAcUGU------UGUCGuCGCGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 50797 0.7 0.812175
Target:  5'- cGCgacagAUUaGCAACAGCAGCaGCCAGUg -3'
miRNA:   3'- cCGa----UGAcUGUUGUCGUCG-CGGUCGu -5'
16629 3' -54.9 NC_004156.1 + 164365 0.72 0.732291
Target:  5'- aGGCUugUcGGCGAUGGgggugcugaaugaucCAGUGCCAGCAc -3'
miRNA:   3'- -CCGAugA-CUGUUGUC---------------GUCGCGGUCGU- -5'
16629 3' -54.9 NC_004156.1 + 63061 0.75 0.576965
Target:  5'- aGGCUAgaGACGACgccAGCGGUGCCAaaaagcGCAa -3'
miRNA:   3'- -CCGAUgaCUGUUG---UCGUCGCGGU------CGU- -5'
16629 3' -54.9 NC_004156.1 + 39567 1.11 0.003377
Target:  5'- aGGCUACUGACAACAGCAGCGCCAGCAa -3'
miRNA:   3'- -CCGAUGACUGUUGUCGUCGCGGUCGU- -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.