miRNA display CGI


Results 1 - 20 of 40 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
2754 3' -56.9 NC_001491.2 + 146397 0.66 0.854371
Target:  5'- cUGGCCgCG-GCagCGGCGGCCUGGgccGGGUa -3'
miRNA:   3'- uACCGG-GUaCG--GUUGUUGGACC---UCCG- -5'
2754 3' -56.9 NC_001491.2 + 121514 0.66 0.846365
Target:  5'- -gGGuCCCccGCCGGgGGCgaGGGGGUc -3'
miRNA:   3'- uaCC-GGGuaCGGUUgUUGgaCCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 85722 0.66 0.83816
Target:  5'- -cGGCCUgcGCCGccACAcgucUCUGGGGGUg -3'
miRNA:   3'- uaCCGGGuaCGGU--UGUu---GGACCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 125597 0.66 0.83816
Target:  5'- -cGGCCgcUGCCGcggcgGCGGCCgucGGAGGg -3'
miRNA:   3'- uaCCGGguACGGU-----UGUUGGa--CCUCCg -5'
2754 3' -56.9 NC_001491.2 + 141583 0.66 0.83816
Target:  5'- -gGGCCCugcGCCcguACcuGGCCcGGGGGCc -3'
miRNA:   3'- uaCCGGGua-CGGu--UG--UUGGaCCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 116363 0.66 0.829762
Target:  5'- gGUGGCCCGgaccguggcGCCGcuggugcgcuACAacGCCgaGGGGGCc -3'
miRNA:   3'- -UACCGGGUa--------CGGU----------UGU--UGGa-CCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 33618 0.66 0.821181
Target:  5'- -aGGCCCGgcagGCUAGaaacugUAGCCUGGGGa- -3'
miRNA:   3'- uaCCGGGUa---CGGUU------GUUGGACCUCcg -5'
2754 3' -56.9 NC_001491.2 + 85533 0.66 0.820313
Target:  5'- -gGGgCCGcuguuaacaaaucUGCCAG-AAUCUGGGGGCu -3'
miRNA:   3'- uaCCgGGU-------------ACGGUUgUUGGACCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 116826 0.66 0.811538
Target:  5'- -cGGCCCAggccgccgcUGCCGcggccagccagcaACAGCCc-GAGGCc -3'
miRNA:   3'- uaCCGGGU---------ACGGU-------------UGUUGGacCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 5596 0.67 0.803497
Target:  5'- cAUGcGCCUggGCCAACGc---GGAGGCg -3'
miRNA:   3'- -UAC-CGGGuaCGGUUGUuggaCCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 138113 0.67 0.803497
Target:  5'- -cGGCCCccccgGCC-GCGGCUgcggcgaaggUGGGGGCc -3'
miRNA:   3'- uaCCGGGua---CGGuUGUUGG----------ACCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 81935 0.67 0.794413
Target:  5'- uUGGCagCAUGUgA--AACUUGGAGGCg -3'
miRNA:   3'- uACCGg-GUACGgUugUUGGACCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 35995 0.67 0.785178
Target:  5'- -cGGCCCuuauUGCCAACccccUCUGGGcccuGGCc -3'
miRNA:   3'- uaCCGGGu---ACGGUUGuu--GGACCU----CCG- -5'
2754 3' -56.9 NC_001491.2 + 114683 0.67 0.775802
Target:  5'- -gGGCCCAgGCCGAgGGCCUcG-GGUu -3'
miRNA:   3'- uaCCGGGUaCGGUUgUUGGAcCuCCG- -5'
2754 3' -56.9 NC_001491.2 + 85672 0.67 0.766295
Target:  5'- cGUGGCCCAcGuCCAGcCAGUCgagGGGGGUg -3'
miRNA:   3'- -UACCGGGUaC-GGUU-GUUGGa--CCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 56531 0.68 0.756665
Target:  5'- -aGGgCUGUGUCGGCAGCCaUGaccGAGGCu -3'
miRNA:   3'- uaCCgGGUACGGUUGUUGG-AC---CUCCG- -5'
2754 3' -56.9 NC_001491.2 + 145112 0.68 0.756665
Target:  5'- -cGGaCCCgggGUGCCGGgGACCcuccgcccggGGAGGCc -3'
miRNA:   3'- uaCC-GGG---UACGGUUgUUGGa---------CCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 20233 0.68 0.750832
Target:  5'- uUGGCCCuggGCCuaaauguaccauacACAACCUccgggcuaaugGGAGGUg -3'
miRNA:   3'- uACCGGGua-CGGu-------------UGUUGGA-----------CCUCCG- -5'
2754 3' -56.9 NC_001491.2 + 42565 0.69 0.693792
Target:  5'- gGUGGUagCCAgcacUGCCGcguauaucucggccGCAGCCUGGgcGGGCu -3'
miRNA:   3'- -UACCG--GGU----ACGGU--------------UGUUGGACC--UCCG- -5'
2754 3' -56.9 NC_001491.2 + 42624 0.69 0.686634
Target:  5'- -aGGCCCGaacucGCCAugAACCUuaugcggugccaGGuGGCg -3'
miRNA:   3'- uaCCGGGUa----CGGUugUUGGA------------CCuCCG- -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.