miRNA display CGI


Results 1 - 20 of 20 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
13356 3' -58 NC_003409.1 + 24481 0.66 0.813137
Target:  5'- uCCUGggGUGCUGCCGGggcuccuggggugcuGCCGGggcUCCUGg -3'
miRNA:   3'- cGGACa-UACGGUGGCU---------------UGGCC---GGGAC- -5'
13356 3' -58 NC_003409.1 + 24541 0.66 0.813137
Target:  5'- uCCUGggGUGCUGCCGGggcuccuggggugcuGCCGGggcUCCUGg -3'
miRNA:   3'- cGGACa-UACGGUGGCU---------------UGGCC---GGGAC- -5'
13356 3' -58 NC_003409.1 + 24601 0.66 0.813137
Target:  5'- uCCUGggGUGCUGCCGGggcuccuggggugcuGCCGGggcUCCUGg -3'
miRNA:   3'- cGGACa-UACGGUGGCU---------------UGGCC---GGGAC- -5'
13356 3' -58 NC_003409.1 + 24661 0.66 0.813137
Target:  5'- uCCUGggGUGCUGCCGGggcuccuggggugcuGCCGGggcUCCUGg -3'
miRNA:   3'- cGGACa-UACGGUGGCU---------------UGGCC---GGGAC- -5'
13356 3' -58 NC_003409.1 + 24721 0.66 0.813137
Target:  5'- uCCUGggGUGCUGCCGGggcuccuggggugcuGCCGGggcUCCUGg -3'
miRNA:   3'- cGGACa-UACGGUGGCU---------------UGGCC---GGGAC- -5'
13356 3' -58 NC_003409.1 + 79783 0.66 0.800844
Target:  5'- cGCCUccaGUGgccgGCCGCCaagGAACCccgaGGCCaCUGa -3'
miRNA:   3'- -CGGA---CAUa---CGGUGG---CUUGG----CCGG-GAC- -5'
13356 3' -58 NC_003409.1 + 94888 0.66 0.782776
Target:  5'- gGCCUcGaUcgGCCuGCUGAcuCCGGUCCUGa -3'
miRNA:   3'- -CGGA-C-AuaCGG-UGGCUu-GGCCGGGAC- -5'
13356 3' -58 NC_003409.1 + 108785 0.67 0.777248
Target:  5'- gGCCUGgccgGCCACCGugucuaugguggccaAcaggagGCCGGCCUg- -3'
miRNA:   3'- -CGGACaua-CGGUGGC---------------U------UGGCCGGGac -5'
13356 3' -58 NC_003409.1 + 40702 0.67 0.773536
Target:  5'- uGCaCUGgc-GCCACCGAacgGCCGcGUCCa- -3'
miRNA:   3'- -CG-GACauaCGGUGGCU---UGGC-CGGGac -5'
13356 3' -58 NC_003409.1 + 90318 0.67 0.764173
Target:  5'- -gCUGgacUGCCGCCGGcguccagacGCCGGCCa-- -3'
miRNA:   3'- cgGACau-ACGGUGGCU---------UGGCCGGgac -5'
13356 3' -58 NC_003409.1 + 133183 0.67 0.754693
Target:  5'- gGCgCUGgc-GCCG-CGGACCGGCCUg- -3'
miRNA:   3'- -CG-GACauaCGGUgGCUUGGCCGGGac -5'
13356 3' -58 NC_003409.1 + 100297 0.67 0.74221
Target:  5'- uGCCUGUacugGUGUUugCGAACUuugaggccgcguguGGcCCCUGg -3'
miRNA:   3'- -CGGACA----UACGGugGCUUGG--------------CC-GGGAC- -5'
13356 3' -58 NC_003409.1 + 31678 0.67 0.725648
Target:  5'- gGCUUGgAUGCCgACCGGgaauugGCUGGCCUUu -3'
miRNA:   3'- -CGGACaUACGG-UGGCU------UGGCCGGGAc -5'
13356 3' -58 NC_003409.1 + 117626 0.68 0.715795
Target:  5'- gGCCUGguUGaCACCGcguGCCGGCCauCUGa -3'
miRNA:   3'- -CGGACauACgGUGGCu--UGGCCGG--GAC- -5'
13356 3' -58 NC_003409.1 + 92858 0.68 0.705871
Target:  5'- uUCUGUGUGaaaCugCGAGCCcucagGGCCCg- -3'
miRNA:   3'- cGGACAUACg--GugGCUUGG-----CCGGGac -5'
13356 3' -58 NC_003409.1 + 93032 0.68 0.705871
Target:  5'- uUCUGUGUGaaaCugCGAGCCcucagGGCCCg- -3'
miRNA:   3'- cGGACAUACg--GugGCUUGG-----CCGGGac -5'
13356 3' -58 NC_003409.1 + 120608 0.68 0.665649
Target:  5'- aGCCUGUGU----CCGAugCGGCCCc- -3'
miRNA:   3'- -CGGACAUAcgguGGCUugGCCGGGac -5'
13356 3' -58 NC_003409.1 + 47725 0.69 0.629065
Target:  5'- uGCCUGUcGUGCCGCaCGAgcGCCGuGagcagacggaacaccCCCUGg -3'
miRNA:   3'- -CGGACA-UACGGUG-GCU--UGGC-C---------------GGGAC- -5'
13356 3' -58 NC_003409.1 + 37266 0.76 0.290258
Target:  5'- aUCUGUugaauGUGaUCACgGAGCCGGCCCUGa -3'
miRNA:   3'- cGGACA-----UAC-GGUGgCUUGGCCGGGAC- -5'
13356 3' -58 NC_003409.1 + 133613 1.1 0.001319
Target:  5'- gGCCUGUAUGCCACCGAACCGGCCCUGg -3'
miRNA:   3'- -CGGACAUACGGUGGCUUGGCCGGGAC- -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.