miRNA display CGI


Results 1 - 20 of 21 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
7179 5' -55.9 NC_001900.1 + 21944 0.66 0.637531
Target:  5'- -aUCGCgaugagCCGUGAGGCUGGgCGUGGg- -3'
miRNA:   3'- ucAGUG------GGUACUUCGGCUgGCACCac -5'
7179 5' -55.9 NC_001900.1 + 37063 0.66 0.637531
Target:  5'- cGUCACCCG-GAcGCCG-CCacGGUGg -3'
miRNA:   3'- uCAGUGGGUaCUuCGGCuGGcaCCAC- -5'
7179 5' -55.9 NC_001900.1 + 24423 0.66 0.637531
Target:  5'- cGUCACCCAggaaccgccGAAGCCG-CCuUGGc- -3'
miRNA:   3'- uCAGUGGGUa--------CUUCGGCuGGcACCac -5'
7179 5' -55.9 NC_001900.1 + 26059 0.66 0.637531
Target:  5'- aGGUCGCCCuUGggGuuGauGCCGaGGg- -3'
miRNA:   3'- -UCAGUGGGuACuuCggC--UGGCaCCac -5'
7179 5' -55.9 NC_001900.1 + 3371 0.66 0.612085
Target:  5'- ---gGCCCAcgcgaaagguguggUGAGGCCGGCCGgccGUGa -3'
miRNA:   3'- ucagUGGGU--------------ACUUCGGCUGGCac-CAC- -5'
7179 5' -55.9 NC_001900.1 + 20476 0.67 0.608771
Target:  5'- cAGUUcCCCAaGAucuggaucaucuucgGGCCGGCCaaGUGGUGc -3'
miRNA:   3'- -UCAGuGGGUaCU---------------UCGGCUGG--CACCAC- -5'
7179 5' -55.9 NC_001900.1 + 2667 0.67 0.604354
Target:  5'- --cCACCCA-GGAGgUGACUGUGGg- -3'
miRNA:   3'- ucaGUGGGUaCUUCgGCUGGCACCac -5'
7179 5' -55.9 NC_001900.1 + 6836 0.67 0.582341
Target:  5'- gGGUUACUCGcagGGAGCC-AUCGUGGUu -3'
miRNA:   3'- -UCAGUGGGUa--CUUCGGcUGGCACCAc -5'
7179 5' -55.9 NC_001900.1 + 25936 0.67 0.582341
Target:  5'- cGGgcugCGCCCGUcaGGGCCGACCagaaGUGGUu -3'
miRNA:   3'- -UCa---GUGGGUAc-UUCGGCUGG----CACCAc -5'
7179 5' -55.9 NC_001900.1 + 15722 0.67 0.571392
Target:  5'- gAGUCGCCCuggGAucccccugcccAGCagacccaGACCGUGGa- -3'
miRNA:   3'- -UCAGUGGGua-CU-----------UCGg------CUGGCACCac -5'
7179 5' -55.9 NC_001900.1 + 39854 0.67 0.560494
Target:  5'- ---aGCCCGUGGAGCaCGGCgGUcGGUa -3'
miRNA:   3'- ucagUGGGUACUUCG-GCUGgCA-CCAc -5'
7179 5' -55.9 NC_001900.1 + 28069 0.68 0.528179
Target:  5'- uAGUCACCCGUGAAuacGUCGACCc----- -3'
miRNA:   3'- -UCAGUGGGUACUU---CGGCUGGcaccac -5'
7179 5' -55.9 NC_001900.1 + 45725 0.68 0.517558
Target:  5'- aGGUCGCCCGcaggccagGggGUgGGCUGcuUGGUGa -3'
miRNA:   3'- -UCAGUGGGUa-------CuuCGgCUGGC--ACCAC- -5'
7179 5' -55.9 NC_001900.1 + 12689 0.68 0.496579
Target:  5'- cGGUCGCCCGcUGuucaucGAGUCGACCuacGGUGa -3'
miRNA:   3'- -UCAGUGGGU-AC------UUCGGCUGGca-CCAC- -5'
7179 5' -55.9 NC_001900.1 + 8386 0.69 0.486235
Target:  5'- cGUCACCCcgG-AGCUGcACCGUGcGg- -3'
miRNA:   3'- uCAGUGGGuaCuUCGGC-UGGCAC-Cac -5'
7179 5' -55.9 NC_001900.1 + 43311 0.69 0.444954
Target:  5'- cGUUGCUCAcgcUGGcucccucacgucgGGCCGACCGUGGg- -3'
miRNA:   3'- uCAGUGGGU---ACU-------------UCGGCUGGCACCac -5'
7179 5' -55.9 NC_001900.1 + 18585 0.69 0.436157
Target:  5'- uGGU-GCCCgacGUG-AGCCGGCCGuUGGUGc -3'
miRNA:   3'- -UCAgUGGG---UACuUCGGCUGGC-ACCAC- -5'
7179 5' -55.9 NC_001900.1 + 45102 0.7 0.4265
Target:  5'- aGGU-GCCCGUGAgaccGGCCGcguucGCCGUGGa- -3'
miRNA:   3'- -UCAgUGGGUACU----UCGGC-----UGGCACCac -5'
7179 5' -55.9 NC_001900.1 + 24271 0.71 0.354071
Target:  5'- --cCGCCCGaGAAGgUGGCUGUGGUGu -3'
miRNA:   3'- ucaGUGGGUaCUUCgGCUGGCACCAC- -5'
7179 5' -55.9 NC_001900.1 + 25753 0.74 0.242953
Target:  5'- ---gGCCCAgccGggGCCGaccGCCGUGGUGu -3'
miRNA:   3'- ucagUGGGUa--CuuCGGC---UGGCACCAC- -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.