miRNA display CGI


Results 1 - 20 of 26 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
13299 5' -54.6 NC_003409.1 + 11911 0.66 0.935555
Target:  5'- uGgCGCCAucuAGUgUUCUGCCGAGcagcuugAGGa -3'
miRNA:   3'- -CgGCGGUu--UCA-GAGACGGCUCa------UCCg -5'
13299 5' -54.6 NC_003409.1 + 47915 1.14 0.001535
Target:  5'- gGCCGCCAAAGUCUCUGCCGAGUAGGCa -3'
miRNA:   3'- -CGGCGGUUUCAGAGACGGCUCAUCCG- -5'
13299 5' -54.6 NC_003409.1 + 82650 0.73 0.587537
Target:  5'- uCCGCCccguGUUguUCUGCCGuauuGUAGGCg -3'
miRNA:   3'- cGGCGGuuu-CAG--AGACGGCu---CAUCCG- -5'
13299 5' -54.6 NC_003409.1 + 110090 0.72 0.629006
Target:  5'- cGCCGCCAGAGcgUUCcugcgccugGCCGAccAGGCg -3'
miRNA:   3'- -CGGCGGUUUCa-GAGa--------CGGCUcaUCCG- -5'
13299 5' -54.6 NC_003409.1 + 24713 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24673 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24633 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24593 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24553 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24513 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 24473 0.7 0.77069
Target:  5'- uGCUGCCGGGGcUCcuggggugCUGCCGGGgcuccugGGGUg -3'
miRNA:   3'- -CGGCGGUUUC-AGa-------GACGGCUCa------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 74556 0.66 0.919468
Target:  5'- uCCGCCGGAGaCUCcggGCCGA--AGGa -3'
miRNA:   3'- cGGCGGUUUCaGAGa--CGGCUcaUCCg -5'
13299 5' -54.6 NC_003409.1 + 67041 0.66 0.918317
Target:  5'- cGUCGCCAccuucgaGGGUCUCUGUCaucuuGGUgacguuauuuuccAGGCa -3'
miRNA:   3'- -CGGCGGU-------UUCAGAGACGGc----UCA-------------UCCG- -5'
13299 5' -54.6 NC_003409.1 + 48793 0.67 0.901173
Target:  5'- gGCCagggGUCAcAGUUUCcagGCCGAGcUAGGUa -3'
miRNA:   3'- -CGG----CGGUuUCAGAGa--CGGCUC-AUCCG- -5'
13299 5' -54.6 NC_003409.1 + 23252 0.68 0.84216
Target:  5'- aGCUuuGCCGAAGuUCUCggaaaGCCGGugGGGCg -3'
miRNA:   3'- -CGG--CGGUUUC-AGAGa----CGGCUcaUCCG- -5'
13299 5' -54.6 NC_003409.1 + 12290 0.68 0.84216
Target:  5'- uCCGuCCaAGAGUCUCUgGCCuGGGUgcgggGGGCc -3'
miRNA:   3'- cGGC-GG-UUUCAGAGA-CGG-CUCA-----UCCG- -5'
13299 5' -54.6 NC_003409.1 + 95879 0.69 0.807736
Target:  5'- aCCGaUCu--GUgUCUGCCGAGggAGGCg -3'
miRNA:   3'- cGGC-GGuuuCAgAGACGGCUCa-UCCG- -5'
13299 5' -54.6 NC_003409.1 + 97865 0.69 0.807736
Target:  5'- uCUGUCAguagguAGGUCUCUgcaaGCCGGGUgAGGCc -3'
miRNA:   3'- cGGCGGU------UUCAGAGA----CGGCUCA-UCCG- -5'
13299 5' -54.6 NC_003409.1 + 73864 0.66 0.925077
Target:  5'- aGuuGCCAAcaguAGUCccUCUGCCGGccAGcGCg -3'
miRNA:   3'- -CggCGGUU----UCAG--AGACGGCUcaUC-CG- -5'
13299 5' -54.6 NC_003409.1 + 37313 0.7 0.761087
Target:  5'- uCCGCCGAAGUC---GCCGAGgaccucaGGGUa -3'
miRNA:   3'- cGGCGGUUUCAGagaCGGCUCa------UCCG- -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.