miRNA display CGI


Results 1 - 20 of 113 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
12358 3' -57.3 NC_003324.1 + 38089 0.66 0.672299
Target:  5'- aCGCGCCccgugcGCCGCAAccgcucCGGcAugGCCGc -3'
miRNA:   3'- gGCGUGGc-----CGGUGUU------GCCaUugCGGC- -5'
12358 3' -57.3 NC_003324.1 + 29728 0.66 0.672299
Target:  5'- cUCGaucCCGGCUcagGCGGCGGcguuGCGCCa -3'
miRNA:   3'- -GGCgu-GGCCGG---UGUUGCCau--UGCGGc -5'
12358 3' -57.3 NC_003324.1 + 44532 0.66 0.671237
Target:  5'- gCCGUuucaaacGCCGGCCAuCAGCGaccgaaGUcucGGCGCCc -3'
miRNA:   3'- -GGCG-------UGGCCGGU-GUUGC------CA---UUGCGGc -5'
12358 3' -57.3 NC_003324.1 + 18249 0.66 0.661668
Target:  5'- aUCGCACCcagaGCCACGAccuugcCGGUGucggcgaaaccgGCGUCGa -3'
miRNA:   3'- -GGCGUGGc---CGGUGUU------GCCAU------------UGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 39081 0.66 0.661668
Target:  5'- aUCGuCACCGGCuCACucgcuGCGGcuGCGCa- -3'
miRNA:   3'- -GGC-GUGGCCG-GUGu----UGCCauUGCGgc -5'
12358 3' -57.3 NC_003324.1 + 24986 0.66 0.661668
Target:  5'- gCGUGCUGGCgAUggUGGUGACaaaCCGc -3'
miRNA:   3'- gGCGUGGCCGgUGuuGCCAUUGc--GGC- -5'
12358 3' -57.3 NC_003324.1 + 39698 0.66 0.655276
Target:  5'- gCCGCAcgucgcgccaugugcCCGGCCu--GCGGUucuGCaGCCa -3'
miRNA:   3'- -GGCGU---------------GGCCGGuguUGCCAu--UG-CGGc -5'
12358 3' -57.3 NC_003324.1 + 18306 0.66 0.655276
Target:  5'- gCUGCcCCGGCCu---UGGUGagaccgccaaagcggGCGCCGa -3'
miRNA:   3'- -GGCGuGGCCGGuguuGCCAU---------------UGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 27654 0.66 0.651011
Target:  5'- aCCGCuuGCCGuuCGCGACcaccucauGcGUGGCGCCGa -3'
miRNA:   3'- -GGCG--UGGCcgGUGUUG--------C-CAUUGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 39786 0.66 0.651011
Target:  5'- aCCGCagGCCGGgCACAugGcGcGACGUgCGg -3'
miRNA:   3'- -GGCG--UGGCCgGUGUugC-CaUUGCG-GC- -5'
12358 3' -57.3 NC_003324.1 + 28701 0.66 0.651011
Target:  5'- cCCGCAacgauCCgGGCCACGAgGGcGACaGCgGg -3'
miRNA:   3'- -GGCGU-----GG-CCGGUGUUgCCaUUG-CGgC- -5'
12358 3' -57.3 NC_003324.1 + 16126 0.66 0.640338
Target:  5'- cCUGCGCaGGgCGCuuCGGUAGCggggGCCGc -3'
miRNA:   3'- -GGCGUGgCCgGUGuuGCCAUUG----CGGC- -5'
12358 3' -57.3 NC_003324.1 + 44427 0.66 0.640338
Target:  5'- -gGCACCGGgCGCcgagacuuCGGUcgcugAugGCCGg -3'
miRNA:   3'- ggCGUGGCCgGUGuu------GCCA-----UugCGGC- -5'
12358 3' -57.3 NC_003324.1 + 28575 0.66 0.640338
Target:  5'- cCCGCGuuG-CCAUcaagGAUGGUAAgGCCa -3'
miRNA:   3'- -GGCGUggCcGGUG----UUGCCAUUgCGGc -5'
12358 3' -57.3 NC_003324.1 + 38473 0.66 0.633929
Target:  5'- gCGCACCGgauacguguucGCCACcacuuccucccgcacGACGGcgaccAGCGCCGc -3'
miRNA:   3'- gGCGUGGC-----------CGGUG---------------UUGCCa----UUGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 42204 0.66 0.629657
Target:  5'- cCCGCGgCGGCauugGCGACGaGUGcgaaGCGCUc -3'
miRNA:   3'- -GGCGUgGCCGg---UGUUGC-CAU----UGCGGc -5'
12358 3' -57.3 NC_003324.1 + 10289 0.66 0.629657
Target:  5'- uUGCGCCGG-CAUGAUauUGGCGCCGa -3'
miRNA:   3'- gGCGUGGCCgGUGUUGccAUUGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 44409 0.66 0.628589
Target:  5'- gCGCGCCguGGCUGCAGaggcuauCGGccGCGCCa -3'
miRNA:   3'- gGCGUGG--CCGGUGUU-------GCCauUGCGGc -5'
12358 3' -57.3 NC_003324.1 + 57150 0.67 0.62325
Target:  5'- gCGCACCucaagcuuuucagaaGGCCAaGACGGcuugcgAGCGUCGu -3'
miRNA:   3'- gGCGUGG---------------CCGGUgUUGCCa-----UUGCGGC- -5'
12358 3' -57.3 NC_003324.1 + 12273 0.67 0.62325
Target:  5'- aCCGU-CCGGCgGCucguuccaguccgcaGACGGUAGCGgCu -3'
miRNA:   3'- -GGCGuGGCCGgUG---------------UUGCCAUUGCgGc -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.