miRNA display CGI


Results 1 - 20 of 22 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
18672 3' -57.4 NC_004682.1 + 17029 0.66 0.639734
Target:  5'- cGCUGGCAUCaggacuUCGG-CUgCCGccuuGAUCCCg -3'
miRNA:   3'- -CGACUGUGG------GGCCaGA-GGCu---CUAGGG- -5'
18672 3' -57.4 NC_004682.1 + 32780 0.66 0.639734
Target:  5'- cGCUGGCGUgCUGGaucUCUUCGAGAagcUCCUu -3'
miRNA:   3'- -CGACUGUGgGGCC---AGAGGCUCU---AGGG- -5'
18672 3' -57.4 NC_004682.1 + 4957 0.66 0.628969
Target:  5'- --cGACAcCCCCGGUgCUCgGGcGGUCUg -3'
miRNA:   3'- cgaCUGU-GGGGCCA-GAGgCU-CUAGGg -5'
18672 3' -57.4 NC_004682.1 + 23372 0.66 0.628969
Target:  5'- --cGACGCggagCCGGUCUCCuucGAUCCg -3'
miRNA:   3'- cgaCUGUGg---GGCCAGAGGcu-CUAGGg -5'
18672 3' -57.4 NC_004682.1 + 48246 0.66 0.618208
Target:  5'- cGC-GACACCuuGGUCauuggcgggUCCGcAGAUCa- -3'
miRNA:   3'- -CGaCUGUGGggCCAG---------AGGC-UCUAGgg -5'
18672 3' -57.4 NC_004682.1 + 23697 0.66 0.596729
Target:  5'- gGCUGGCgucgACCUUcgGGUCgcuggcgaCCGAGGUCCa -3'
miRNA:   3'- -CGACUG----UGGGG--CCAGa-------GGCUCUAGGg -5'
18672 3' -57.4 NC_004682.1 + 47606 0.67 0.575364
Target:  5'- cGCUGGCGa-CCGGcCUCgGAGA-CCUu -3'
miRNA:   3'- -CGACUGUggGGCCaGAGgCUCUaGGG- -5'
18672 3' -57.4 NC_004682.1 + 28209 0.67 0.575364
Target:  5'- uGCUcuACGuCCUCGG-CUUCGAGGUCUCu -3'
miRNA:   3'- -CGAc-UGU-GGGGCCaGAGGCUCUAGGG- -5'
18672 3' -57.4 NC_004682.1 + 47691 0.67 0.554178
Target:  5'- gGCUGAaGgCaaGGUCUCCGAGG-CCg -3'
miRNA:   3'- -CGACUgUgGggCCAGAGGCUCUaGGg -5'
18672 3' -57.4 NC_004682.1 + 1158 0.68 0.502363
Target:  5'- uGCUGAgcaGCCUCcucGUCUCCGAGGgugaCCg -3'
miRNA:   3'- -CGACUg--UGGGGc--CAGAGGCUCUag--GG- -5'
18672 3' -57.4 NC_004682.1 + 17447 0.68 0.502363
Target:  5'- uGgUGACGCCgUcgagGGUCUgCGAGAggCCCu -3'
miRNA:   3'- -CgACUGUGGgG----CCAGAgGCUCUa-GGG- -5'
18672 3' -57.4 NC_004682.1 + 31707 0.68 0.48923
Target:  5'- cGCUGuagaugucCAgCCCGGUCgucuccguguccagUCCGAGGaagCCCa -3'
miRNA:   3'- -CGACu-------GUgGGGCCAG--------------AGGCUCUa--GGG- -5'
18672 3' -57.4 NC_004682.1 + 38176 0.68 0.482224
Target:  5'- --gGACGCCCuCGGUCcagCCGAGuucGUCUa -3'
miRNA:   3'- cgaCUGUGGG-GCCAGa--GGCUC---UAGGg -5'
18672 3' -57.4 NC_004682.1 + 2352 0.69 0.452776
Target:  5'- gGCcuugGAUGCCCUGGUCUCCcuuGucgCCCu -3'
miRNA:   3'- -CGa---CUGUGGGGCCAGAGGcu-Cua-GGG- -5'
18672 3' -57.4 NC_004682.1 + 9755 0.7 0.405977
Target:  5'- gGCUGAgGCCauCCGGUCcUCgGAGAgCCg -3'
miRNA:   3'- -CGACUgUGG--GGCCAG-AGgCUCUaGGg -5'
18672 3' -57.4 NC_004682.1 + 5095 0.71 0.354011
Target:  5'- aGCgUGGCGCaCUGGUCgaaCGAGAUCCa -3'
miRNA:   3'- -CG-ACUGUGgGGCCAGag-GCUCUAGGg -5'
18672 3' -57.4 NC_004682.1 + 7992 0.71 0.337764
Target:  5'- aCUGGCugC-CGGUCgaCGAGAUCCUg -3'
miRNA:   3'- cGACUGugGgGCCAGagGCUCUAGGG- -5'
18672 3' -57.4 NC_004682.1 + 42329 0.72 0.27146
Target:  5'- cGCUGGCuACCCCGGcC-CCGuGAUCa- -3'
miRNA:   3'- -CGACUG-UGGGGCCaGaGGCuCUAGgg -5'
18672 3' -57.4 NC_004682.1 + 5646 0.73 0.251808
Target:  5'- gGUUGGCGCgUCCGGUgUUCGGGuucGUCCCg -3'
miRNA:   3'- -CGACUGUG-GGGCCAgAGGCUC---UAGGG- -5'
18672 3' -57.4 NC_004682.1 + 12773 0.74 0.21603
Target:  5'- cGCUGACGCCCCgaaaccGGcCUCCcccaagcGAUCCCc -3'
miRNA:   3'- -CGACUGUGGGG------CCaGAGGcu-----CUAGGG- -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.