miRNA display CGI


Results 1 - 20 of 39 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
28017 3' -58.2 NC_005887.1 + 41288 0.66 0.484855
Target:  5'- -gCACGCgGUCCuUCGACu-GCGUCUu -3'
miRNA:   3'- ugGUGCGgUAGG-AGCUGcuCGCAGGu -5'
28017 3' -58.2 NC_005887.1 + 40596 0.74 0.163486
Target:  5'- aACC-CGCgGuUCCUCGACGAGCGUgUg -3'
miRNA:   3'- -UGGuGCGgU-AGGAGCUGCUCGCAgGu -5'
28017 3' -58.2 NC_005887.1 + 40468 0.66 0.492014
Target:  5'- cUCGgGCUucguuUCCUCGGCGAGCacauagaaccagugGUCCGa -3'
miRNA:   3'- uGGUgCGGu----AGGAGCUGCUCG--------------CAGGU- -5'
28017 3' -58.2 NC_005887.1 + 39886 0.66 0.474713
Target:  5'- uCCGCGUCAgcgCCUCGuCGAcgGCG-CCGu -3'
miRNA:   3'- uGGUGCGGUa--GGAGCuGCU--CGCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 38375 0.71 0.225354
Target:  5'- -gCACGCCGUCCUCGuucGCGAGCa---- -3'
miRNA:   3'- ugGUGCGGUAGGAGC---UGCUCGcaggu -5'
28017 3' -58.2 NC_005887.1 + 38048 0.67 0.435263
Target:  5'- -gCugGCCggCCUCGGCGAGgaUGUCg- -3'
miRNA:   3'- ugGugCGGuaGGAGCUGCUC--GCAGgu -5'
28017 3' -58.2 NC_005887.1 + 37457 0.66 0.505439
Target:  5'- cUCGCGCCGgcCCUCGGCGAccauCGUCgCGa -3'
miRNA:   3'- uGGUGCGGUa-GGAGCUGCUc---GCAG-GU- -5'
28017 3' -58.2 NC_005887.1 + 37231 0.69 0.305984
Target:  5'- gUCAUGCCGagCUUGGCGAGCaccucgucGUCCAg -3'
miRNA:   3'- uGGUGCGGUagGAGCUGCUCG--------CAGGU- -5'
28017 3' -58.2 NC_005887.1 + 35062 0.68 0.388731
Target:  5'- gUCGCuGCCGUCgUCGGCGGGCGcgacUUCGa -3'
miRNA:   3'- uGGUG-CGGUAGgAGCUGCUCGC----AGGU- -5'
28017 3' -58.2 NC_005887.1 + 34939 0.71 0.243653
Target:  5'- uGCCGuCGCCGgcuucgaaCUCGGCGGGCGUgCGc -3'
miRNA:   3'- -UGGU-GCGGUag------GAGCUGCUCGCAgGU- -5'
28017 3' -58.2 NC_005887.1 + 34627 0.68 0.353934
Target:  5'- aGCCAuuCGCCGUUCgcgUCGACGAGgCGcgCCGg -3'
miRNA:   3'- -UGGU--GCGGUAGG---AGCUGCUC-GCa-GGU- -5'
28017 3' -58.2 NC_005887.1 + 33851 0.68 0.374546
Target:  5'- cGCCACGCCGUUacgcgaCUCGAgccacgugucgucgcCGAGCGguugcgCCGg -3'
miRNA:   3'- -UGGUGCGGUAG------GAGCU---------------GCUCGCa-----GGU- -5'
28017 3' -58.2 NC_005887.1 + 33481 0.68 0.388731
Target:  5'- uACgGCGUCGcgaUCUCGACGGGCGcgCCGg -3'
miRNA:   3'- -UGgUGCGGUa--GGAGCUGCUCGCa-GGU- -5'
28017 3' -58.2 NC_005887.1 + 33423 0.72 0.219519
Target:  5'- uACCGCGaCCGagcagacgaUCCUCGACGAGC-UUCGc -3'
miRNA:   3'- -UGGUGC-GGU---------AGGAGCUGCUCGcAGGU- -5'
28017 3' -58.2 NC_005887.1 + 32158 0.66 0.474713
Target:  5'- cGCgACGCa---CUCGACGAaaccguucGCGUCCGg -3'
miRNA:   3'- -UGgUGCGguagGAGCUGCU--------CGCAGGU- -5'
28017 3' -58.2 NC_005887.1 + 31363 1.08 0.000458
Target:  5'- cACCACGCCAUCCUCGACGAGCGUCCAg -3'
miRNA:   3'- -UGGUGCGGUAGGAGCUGCUCGCAGGU- -5'
28017 3' -58.2 NC_005887.1 + 31342 0.73 0.192249
Target:  5'- gACCGgGCCGUCgUCGAUGGcccaCGUCCAg -3'
miRNA:   3'- -UGGUgCGGUAGgAGCUGCUc---GCAGGU- -5'
28017 3' -58.2 NC_005887.1 + 31276 0.67 0.425698
Target:  5'- gGCCGCGUCGaucgCCUCGuCGAGCucgaCCGg -3'
miRNA:   3'- -UGGUGCGGUa---GGAGCuGCUCGca--GGU- -5'
28017 3' -58.2 NC_005887.1 + 30034 0.75 0.134865
Target:  5'- cGCCgACGCCAcCCUCauaGGCGAGCG-CCAg -3'
miRNA:   3'- -UGG-UGCGGUaGGAG---CUGCUCGCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 29999 0.68 0.379824
Target:  5'- uGCCACGUCAccgCCUggcCGGCGAGCGa--- -3'
miRNA:   3'- -UGGUGCGGUa--GGA---GCUGCUCGCaggu -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.