miRNA display CGI


Results 1 - 20 of 27 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
16120 5' -53.2 NC_004065.1 + 151395 0.66 0.990602
Target:  5'- cGUCGCccUCGCcgacCGCGUUCACcucaGGCGg -3'
miRNA:   3'- aCAGUG--AGUGa---GUGCGAGUGaa--CCGC- -5'
16120 5' -53.2 NC_004065.1 + 61850 0.66 0.989324
Target:  5'- cGUCGCgccgCugUCGCGCcccgCGCgaagGGCc -3'
miRNA:   3'- aCAGUGa---GugAGUGCGa---GUGaa--CCGc -5'
16120 5' -53.2 NC_004065.1 + 169365 0.66 0.987914
Target:  5'- cGUCugUCAgCUCgACGCgUGCgUGGCGc -3'
miRNA:   3'- aCAGugAGU-GAG-UGCGaGUGaACCGC- -5'
16120 5' -53.2 NC_004065.1 + 5774 0.66 0.987914
Target:  5'- cUGUUGCUUcccCUCcCGCUCGCcgGGCGc -3'
miRNA:   3'- -ACAGUGAGu--GAGuGCGAGUGaaCCGC- -5'
16120 5' -53.2 NC_004065.1 + 142383 0.66 0.986365
Target:  5'- gUGUCGaaggCGCgcaguUCGCGCUCGCgcgGGCc -3'
miRNA:   3'- -ACAGUga--GUG-----AGUGCGAGUGaa-CCGc -5'
16120 5' -53.2 NC_004065.1 + 112800 0.66 0.984128
Target:  5'- gGUCugUCGCUCGCGaCguccguccccgccaUCACcugccUGGCGc -3'
miRNA:   3'- aCAGugAGUGAGUGC-G--------------AGUGa----ACCGC- -5'
16120 5' -53.2 NC_004065.1 + 33971 0.67 0.982814
Target:  5'- -aUCACgggccccgacgaUgGCUCGCGCUCAUgcacgUGGUGg -3'
miRNA:   3'- acAGUG------------AgUGAGUGCGAGUGa----ACCGC- -5'
16120 5' -53.2 NC_004065.1 + 195753 0.67 0.980585
Target:  5'- gUGUCAUUUAUcgacggcgccgugUCGCGCUgACcaUGGCGg -3'
miRNA:   3'- -ACAGUGAGUG-------------AGUGCGAgUGa-ACCGC- -5'
16120 5' -53.2 NC_004065.1 + 229494 0.67 0.978607
Target:  5'- cGUCGCggaaGCUucaCACGCUgGCggGGCGc -3'
miRNA:   3'- aCAGUGag--UGA---GUGCGAgUGaaCCGC- -5'
16120 5' -53.2 NC_004065.1 + 64738 0.68 0.970932
Target:  5'- -uUCAagauCUC-CUCGCGCUCGCUgucGGCc -3'
miRNA:   3'- acAGU----GAGuGAGUGCGAGUGAa--CCGc -5'
16120 5' -53.2 NC_004065.1 + 56046 0.68 0.967983
Target:  5'- cGUCAUcgUCGCcgUCGCGaucaUCGCgUUGGCGg -3'
miRNA:   3'- aCAGUG--AGUG--AGUGCg---AGUG-AACCGC- -5'
16120 5' -53.2 NC_004065.1 + 57873 0.68 0.964827
Target:  5'- gGUCACcgagucUCACUguCGCUCucuucCUUGGUGu -3'
miRNA:   3'- aCAGUG------AGUGAguGCGAGu----GAACCGC- -5'
16120 5' -53.2 NC_004065.1 + 194337 0.68 0.961459
Target:  5'- gGUCGCgacgCGCgaucucCugGCUCGCgagcgacgUGGCGa -3'
miRNA:   3'- aCAGUGa---GUGa-----GugCGAGUGa-------ACCGC- -5'
16120 5' -53.2 NC_004065.1 + 194242 0.68 0.96111
Target:  5'- gGUCAgcugccucuucgcCUCGCUCACGUUCGacagGGCc -3'
miRNA:   3'- aCAGU-------------GAGUGAGUGCGAGUgaa-CCGc -5'
16120 5' -53.2 NC_004065.1 + 170893 0.68 0.954067
Target:  5'- cGUCGcCUCGCgcuCGCUCGCUcGGuCGg -3'
miRNA:   3'- aCAGU-GAGUGaguGCGAGUGAaCC-GC- -5'
16120 5' -53.2 NC_004065.1 + 612 0.68 0.954067
Target:  5'- aGUUACgCGCUCAgGCUCGucaGGCGg -3'
miRNA:   3'- aCAGUGaGUGAGUgCGAGUgaaCCGC- -5'
16120 5' -53.2 NC_004065.1 + 200771 0.69 0.950034
Target:  5'- gGUCGCUCuCUCGuCGCgcgGCggUGGCGg -3'
miRNA:   3'- aCAGUGAGuGAGU-GCGag-UGa-ACCGC- -5'
16120 5' -53.2 NC_004065.1 + 127630 0.69 0.936551
Target:  5'- cGUgCAC-CGCUCGCGCUgcCGCUgcGGCGc -3'
miRNA:   3'- aCA-GUGaGUGAGUGCGA--GUGAa-CCGC- -5'
16120 5' -53.2 NC_004065.1 + 6172 0.69 0.931587
Target:  5'- -cUCGCU-ACUCugGCUCGCUgucGGUGc -3'
miRNA:   3'- acAGUGAgUGAGugCGAGUGAa--CCGC- -5'
16120 5' -53.2 NC_004065.1 + 209162 0.7 0.920948
Target:  5'- gUGUCGCUCGcCUCucuaccuacCGCUCGCggaccGGCGc -3'
miRNA:   3'- -ACAGUGAGU-GAGu--------GCGAGUGaa---CCGC- -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.