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
18551 5' -53.2 NC_004682.1 + 42509 1.09 0.001366
Target:  5'- aAUGCGACAACGUCGUAGCUGGCGAACa -3'
miRNA:   3'- -UACGCUGUUGCAGCAUCGACCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 20573 0.79 0.164621
Target:  5'- -gGCGACAugGUCcuucggggcgugGUcGCUGGCGAGCg -3'
miRNA:   3'- uaCGCUGUugCAG------------CAuCGACCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 17276 0.74 0.347608
Target:  5'- -gGCGACAACGgCGcucuGCUgGGCGAGCu -3'
miRNA:   3'- uaCGCUGUUGCaGCau--CGA-CCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 40589 0.72 0.401943
Target:  5'- -gGCGAagaacuuggccCAACGcaugaCGUAGUUGGCGAGCg -3'
miRNA:   3'- uaCGCU-----------GUUGCa----GCAUCGACCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 15050 0.7 0.521853
Target:  5'- gGUGCGGC-GCGUggucgacgggaaccUGgcGCUGGUGGACg -3'
miRNA:   3'- -UACGCUGuUGCA--------------GCauCGACCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 32754 0.69 0.580657
Target:  5'- -gGUGACGAguuCGUCGUAcgccucggcGCUGGCGuGCu -3'
miRNA:   3'- uaCGCUGUU---GCAGCAU---------CGACCGCuUG- -5'
18551 5' -53.2 NC_004682.1 + 25189 0.69 0.591934
Target:  5'- -cGCacucaACAGCGUCcaAGCUGGCGAGg -3'
miRNA:   3'- uaCGc----UGUUGCAGcaUCGACCGCUUg -5'
18551 5' -53.2 NC_004682.1 + 28083 0.69 0.591934
Target:  5'- -gGCGACGaagACGcucgggCGUGGCUgcucgcggcGGCGAGCg -3'
miRNA:   3'- uaCGCUGU---UGCa-----GCAUCGA---------CCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 34728 0.68 0.633896
Target:  5'- gGUGCGcCcgguagagccccguGAUGUCGUAGCUGccguugccgugcGCGAACg -3'
miRNA:   3'- -UACGCuG--------------UUGCAGCAUCGAC------------CGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 11799 0.68 0.648662
Target:  5'- gGUGcCGucuCGGCGUCGUGGaCcGGCGAGg -3'
miRNA:   3'- -UAC-GCu--GUUGCAGCAUC-GaCCGCUUg -5'
18551 5' -53.2 NC_004682.1 + 39405 0.68 0.660002
Target:  5'- -gGCGGUGAUGcCGUAGgUGGCGAAg -3'
miRNA:   3'- uaCGCUGUUGCaGCAUCgACCGCUUg -5'
18551 5' -53.2 NC_004682.1 + 4563 0.68 0.660002
Target:  5'- -gGCcGCAACGccgcguucgcUCGggcGCUGGCGAGCu -3'
miRNA:   3'- uaCGcUGUUGC----------AGCau-CGACCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 25670 0.67 0.693812
Target:  5'- aGUGCGGCGAUGaCGuUGGCgaccuguucGGUGGACa -3'
miRNA:   3'- -UACGCUGUUGCaGC-AUCGa--------CCGCUUG- -5'
18551 5' -53.2 NC_004682.1 + 45780 0.67 0.693812
Target:  5'- gGUGCGGCGucgGCGUacgCGUAGCccuucGGCGGGa -3'
miRNA:   3'- -UACGCUGU---UGCA---GCAUCGa----CCGCUUg -5'
18551 5' -53.2 NC_004682.1 + 45827 0.66 0.763601
Target:  5'- -aGCGACcGCGUCGgccaauugcucgccgUAGUaGGCGAGu -3'
miRNA:   3'- uaCGCUGuUGCAGC---------------AUCGaCCGCUUg -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.