miRNA display CGI


Results 1 - 20 of 88 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
14633 3' -64.2 NC_003521.1 + 106529 0.67 0.587973
Target:  5'- uGGCgGUUCCCAGaagcgcugaaaGcGCGAGU-GGGCCg -3'
miRNA:   3'- cUCGgCAGGGGUC-----------C-CGCUCAgCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 223446 0.69 0.488289
Target:  5'- gGAGCgGUCCCUcu--CGAGUCuGGGCCg -3'
miRNA:   3'- -CUCGgCAGGGGucccGCUCAG-CCCGG- -5'
14633 3' -64.2 NC_003521.1 + 172339 0.69 0.505898
Target:  5'- cGGCCGUCCUguggCAcacgucGGGCGGGU-GGGUCa -3'
miRNA:   3'- cUCGGCAGGG----GU------CCCGCUCAgCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 168408 0.69 0.514804
Target:  5'- -cGCCGUUgguggCUAGGGCGGGcggcaGGGCCg -3'
miRNA:   3'- cuCGGCAGg----GGUCCCGCUCag---CCCGG- -5'
14633 3' -64.2 NC_003521.1 + 186487 0.69 0.518384
Target:  5'- cGAGUgG--CCCAGGGCGAGagccccgucgggaucUCGGGCg -3'
miRNA:   3'- -CUCGgCagGGGUCCCGCUC---------------AGCCCGg -5'
14633 3' -64.2 NC_003521.1 + 20909 0.68 0.541884
Target:  5'- gGAGCagGUCCCCGGGGaCcGGUcucaaucgcacgCGGGUCg -3'
miRNA:   3'- -CUCGg-CAGGGGUCCC-GcUCA------------GCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 238414 0.68 0.550103
Target:  5'- gGGGCCGcUCCCAGugcucgcGGuCGAgGUCGGGCa -3'
miRNA:   3'- -CUCGGCaGGGGUC-------CC-GCU-CAGCCCGg -5'
14633 3' -64.2 NC_003521.1 + 166246 0.68 0.560199
Target:  5'- -uGCCG-CCC---GGCGAG-CGGGCCg -3'
miRNA:   3'- cuCGGCaGGGgucCCGCUCaGCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 207342 0.68 0.569422
Target:  5'- gGGGCgCGUCCCUcGGGUcGG-CGcGGCCg -3'
miRNA:   3'- -CUCG-GCAGGGGuCCCGcUCaGC-CCGG- -5'
14633 3' -64.2 NC_003521.1 + 70337 0.7 0.453976
Target:  5'- -cGCCGUCCagCAGGGCGuugagcuuGUCGGcgggguagaGCCg -3'
miRNA:   3'- cuCGGCAGGg-GUCCCGCu-------CAGCC---------CGG- -5'
14633 3' -64.2 NC_003521.1 + 124193 0.7 0.445603
Target:  5'- -uGCCGg-CUgGGGGUGAG-CGGGCCc -3'
miRNA:   3'- cuCGGCagGGgUCCCGCUCaGCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 88434 0.7 0.424245
Target:  5'- -uGCgCGUCUCCAGGGagacgucguccgccuCGGcGUCGGGCUg -3'
miRNA:   3'- cuCG-GCAGGGGUCCC---------------GCU-CAGCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 35377 0.75 0.224699
Target:  5'- -cGCCGagUCCCCcucGGCGAGgacgCGGGCCg -3'
miRNA:   3'- cuCGGC--AGGGGuc-CCGCUCa---GCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 118225 0.73 0.27988
Target:  5'- -cGCCGUCgCCGGGGUGGucaaugccucguGUCGGGUg -3'
miRNA:   3'- cuCGGCAGgGGUCCCGCU------------CAGCCCGg -5'
14633 3' -64.2 NC_003521.1 + 92113 0.73 0.31129
Target:  5'- cGGGUCGgaacCCCCGGGuGCGGuUCGGGCg -3'
miRNA:   3'- -CUCGGCa---GGGGUCC-CGCUcAGCCCGg -5'
14633 3' -64.2 NC_003521.1 + 131037 0.72 0.324584
Target:  5'- --cCCGUCUCCuGGGCGGcGgcggCGGGCCu -3'
miRNA:   3'- cucGGCAGGGGuCCCGCU-Ca---GCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 35230 0.71 0.364757
Target:  5'- cGAG-CGUCCUCGGGGCGcgagacggcacagaGGUCGGGagaCa -3'
miRNA:   3'- -CUCgGCAGGGGUCCCGC--------------UCAGCCCg--G- -5'
14633 3' -64.2 NC_003521.1 + 155441 0.71 0.405083
Target:  5'- uGGCCGaCCCgCuGGGCGAGUCGcagcaGCCc -3'
miRNA:   3'- cUCGGCaGGG-GuCCCGCUCAGCc----CGG- -5'
14633 3' -64.2 NC_003521.1 + 223866 0.71 0.413001
Target:  5'- cGGCUGUCCCUcGGGUaccacguuGUCGGGCUc -3'
miRNA:   3'- cUCGGCAGGGGuCCCGcu------CAGCCCGG- -5'
14633 3' -64.2 NC_003521.1 + 201380 0.7 0.421014
Target:  5'- -uGCCGUCCCCGGGaGCca--CGGcGCCg -3'
miRNA:   3'- cuCGGCAGGGGUCC-CGcucaGCC-CGG- -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.