miRNA display CGI


Results 1 - 20 of 33 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
11919 3' -55.2 NC_003278.1 + 11929 0.66 0.620079
Target:  5'- nCGAUGCCcaaGGCaGCCAG-CCGgucaGCa -3'
miRNA:   3'- -GCUACGGuagCCGcUGGUCaGGUa---CG- -5'
11919 3' -55.2 NC_003278.1 + 7124 0.66 0.620079
Target:  5'- cCGG-GCCGUUGGCGAUgAaUCCGcucaUGCu -3'
miRNA:   3'- -GCUaCGGUAGCCGCUGgUcAGGU----ACG- -5'
11919 3' -55.2 NC_003278.1 + 23010 0.66 0.620079
Target:  5'- ---cGCCAggaUGGCGACCAGcaCCGcuaccUGCa -3'
miRNA:   3'- gcuaCGGUa--GCCGCUGGUCa-GGU-----ACG- -5'
11919 3' -55.2 NC_003278.1 + 18812 0.66 0.59071
Target:  5'- ---aGCCGaucaagcgCGGCGcCCAGUCCAucgaaucgcucacccUGCg -3'
miRNA:   3'- gcuaCGGUa-------GCCGCuGGUCAGGU---------------ACG- -5'
11919 3' -55.2 NC_003278.1 + 11950 0.66 0.574989
Target:  5'- ---cGCgGUCGGCG-CCGGcCCGcgGCg -3'
miRNA:   3'- gcuaCGgUAGCCGCuGGUCaGGUa-CG- -5'
11919 3' -55.2 NC_003278.1 + 30912 0.67 0.54276
Target:  5'- gCGcgGCCucgacccagcgcuguUCGaGCGuGCCuGUCCGUGCu -3'
miRNA:   3'- -GCuaCGGu--------------AGC-CGC-UGGuCAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 18373 0.67 0.541658
Target:  5'- uCGAaGCCuagGUCGGCcuuGACCGggccGUUCAUGCc -3'
miRNA:   3'- -GCUaCGG---UAGCCG---CUGGU----CAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 30535 0.67 0.519797
Target:  5'- gGcgGUgGUCGGCGGCCAGcUUCAc-- -3'
miRNA:   3'- gCuaCGgUAGCCGCUGGUC-AGGUacg -5'
11919 3' -55.2 NC_003278.1 + 7880 0.67 0.508996
Target:  5'- uGggGCCGU-GGuCGGCCAGgCCGUGg -3'
miRNA:   3'- gCuaCGGUAgCC-GCUGGUCaGGUACg -5'
11919 3' -55.2 NC_003278.1 + 2028 0.68 0.49829
Target:  5'- uCGGUGCCG-CGGCGcauguacuugGCCAGcggcgCC-UGCa -3'
miRNA:   3'- -GCUACGGUaGCCGC----------UGGUCa----GGuACG- -5'
11919 3' -55.2 NC_003278.1 + 19449 0.68 0.49829
Target:  5'- -cGUGCCuGUUGcGCGGCCAGcgCgGUGCu -3'
miRNA:   3'- gcUACGG-UAGC-CGCUGGUCa-GgUACG- -5'
11919 3' -55.2 NC_003278.1 + 13143 0.68 0.477191
Target:  5'- gCGAUGCC-UCGGCcgUCAGcCCAUcGCc -3'
miRNA:   3'- -GCUACGGuAGCCGcuGGUCaGGUA-CG- -5'
11919 3' -55.2 NC_003278.1 + 8830 0.68 0.477191
Target:  5'- uCGAccUGCCGcUGGCGACgA-UCUAUGCa -3'
miRNA:   3'- -GCU--ACGGUaGCCGCUGgUcAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 17242 0.69 0.4265
Target:  5'- gCGcgGUCAUCGGCGGCguCAGcgCCGaugGCa -3'
miRNA:   3'- -GCuaCGGUAGCCGCUG--GUCa-GGUa--CG- -5'
11919 3' -55.2 NC_003278.1 + 21665 0.69 0.416749
Target:  5'- uCGGUGCCcuggugcUCGGCG-CCAGcgcCCcgGCg -3'
miRNA:   3'- -GCUACGGu------AGCCGCuGGUCa--GGuaCG- -5'
11919 3' -55.2 NC_003278.1 + 27560 0.7 0.378236
Target:  5'- uCGAUGCCcagccagAUCGGCu-CUGGUCCA-GCg -3'
miRNA:   3'- -GCUACGG-------UAGCCGcuGGUCAGGUaCG- -5'
11919 3' -55.2 NC_003278.1 + 32259 0.7 0.370107
Target:  5'- ---cGCCGUCGGCGACauccuCGGcCgCAUGCc -3'
miRNA:   3'- gcuaCGGUAGCCGCUG-----GUCaG-GUACG- -5'
11919 3' -55.2 NC_003278.1 + 33122 0.7 0.370107
Target:  5'- aGGUGCCAUCcaGCGACUGGaUgAUGCa -3'
miRNA:   3'- gCUACGGUAGc-CGCUGGUCaGgUACG- -5'
11919 3' -55.2 NC_003278.1 + 32769 0.71 0.330459
Target:  5'- aCGGUGCCggcugggccgucccaGUCGGUGACCGGguaCuUGCc -3'
miRNA:   3'- -GCUACGG---------------UAGCCGCUGGUCag-GuACG- -5'
11919 3' -55.2 NC_003278.1 + 14784 0.71 0.31903
Target:  5'- aCGAUGCCAUUGGCGuugacggugaccGCaCGGUagGUGCc -3'
miRNA:   3'- -GCUACGGUAGCCGC------------UG-GUCAggUACG- -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.