miRNA display CGI


Results 1 - 15 of 15 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
12335 3' -53.4 NC_003324.1 + 26158 0.66 0.844513
Target:  5'- uGCUGGCGGccuGCaucauUCUGUCGGcGGu -3'
miRNA:   3'- -CGACCGCCu--UGgcu--AGAUAGCCaCUg -5'
12335 3' -53.4 NC_003324.1 + 39132 0.66 0.817389
Target:  5'- cGUUGGCGaaGAucuucucuUCGAcgUUGUCGGUGACg -3'
miRNA:   3'- -CGACCGC--CUu-------GGCUa-GAUAGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 4618 0.66 0.807939
Target:  5'- --cGGCGcGGCUcAUCuUGUCGGUGGCg -3'
miRNA:   3'- cgaCCGCcUUGGcUAG-AUAGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 4410 0.67 0.782525
Target:  5'- --aGGCGGuucuuGCCGAUCUGgcgcauguugugcgCGGUGcGCu -3'
miRNA:   3'- cgaCCGCCu----UGGCUAGAUa-------------GCCAC-UG- -5'
12335 3' -53.4 NC_003324.1 + 49272 0.68 0.741408
Target:  5'- gGCaGGaagaucgaGGAGCCGAUCgagGcugucgauggugccuUCGGUGGCg -3'
miRNA:   3'- -CGaCCg-------CCUUGGCUAGa--U---------------AGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 33990 0.68 0.726557
Target:  5'- --aGGCGGAGcCCGAUUcgGUCGGUu-- -3'
miRNA:   3'- cgaCCGCCUU-GGCUAGa-UAGCCAcug -5'
12335 3' -53.4 NC_003324.1 + 17720 0.68 0.723349
Target:  5'- gGCUGGCgauacccaucagcaGGuugaAGCCGAUUgugcCGGUGACa -3'
miRNA:   3'- -CGACCG--------------CC----UUGGCUAGaua-GCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 17312 0.68 0.715832
Target:  5'- -aUGGCaGGAccuggucaccACCGAUCga--GGUGACg -3'
miRNA:   3'- cgACCG-CCU----------UGGCUAGauagCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 24059 0.68 0.705023
Target:  5'- aCUGGCGGGcuuuaccuucucGCCGGUgcgCUGcgccaCGGUGGCg -3'
miRNA:   3'- cGACCGCCU------------UGGCUA---GAUa----GCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 10857 0.68 0.698502
Target:  5'- cCUGGCGGAGuucaucaaacgcgcgUCGuugaUGUCGGUGAUg -3'
miRNA:   3'- cGACCGCCUU---------------GGCuag-AUAGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 14842 0.68 0.694142
Target:  5'- --cGGCGG-ACUGAUCUucaaGUCGGaugagGACg -3'
miRNA:   3'- cgaCCGCCuUGGCUAGA----UAGCCa----CUG- -5'
12335 3' -53.4 NC_003324.1 + 20799 0.69 0.683201
Target:  5'- gGCgaGGCGGcgGACCG---UGUUGGUGACg -3'
miRNA:   3'- -CGa-CCGCC--UUGGCuagAUAGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 3537 0.7 0.57282
Target:  5'- --gGaGCGGAACCGG-CUGcaaacggcgcuUCGGUGGCg -3'
miRNA:   3'- cgaC-CGCCUUGGCUaGAU-----------AGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 9283 0.74 0.399338
Target:  5'- uGCUGGCGuuugguACCGAgaccUCgucAUCGGUGGCg -3'
miRNA:   3'- -CGACCGCcu----UGGCU----AGa--UAGCCACUG- -5'
12335 3' -53.4 NC_003324.1 + 17014 1.12 0.000999
Target:  5'- uGCUGGCGGAACCGAUCUAUCGGUGACg -3'
miRNA:   3'- -CGACCGCCUUGGCUAGAUAGCCACUG- -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.