miRNA display CGI


Results 1 - 20 of 23 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
7314 3' -55.9 NC_001900.1 + 31740 0.66 0.672546
Target:  5'- cAGCUCGaCACcGCGAGGcggACCUUCgGUGAa -3'
miRNA:   3'- -UUGAGC-GUGcUGCUCU---UGGAGG-CGCU- -5'
7314 3' -55.9 NC_001900.1 + 39262 0.66 0.672546
Target:  5'- cGGCUgGgCGCGGgauugcauCGAGAugCUCCaGCGAg -3'
miRNA:   3'- -UUGAgC-GUGCU--------GCUCUugGAGG-CGCU- -5'
7314 3' -55.9 NC_001900.1 + 25585 0.66 0.661538
Target:  5'- --aUCGguCGACc-GGACCUCCGCa- -3'
miRNA:   3'- uugAGCguGCUGcuCUUGGAGGCGcu -5'
7314 3' -55.9 NC_001900.1 + 26696 0.66 0.661538
Target:  5'- ---gCGgGCGACGGGAAUCgaacCCGCGu -3'
miRNA:   3'- uugaGCgUGCUGCUCUUGGa---GGCGCu -5'
7314 3' -55.9 NC_001900.1 + 10438 0.66 0.63945
Target:  5'- gAGCuUCGUgGCGGCGucAGCCUUCGCGGc -3'
miRNA:   3'- -UUG-AGCG-UGCUGCucUUGGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 35170 0.66 0.628391
Target:  5'- --aUCGuCGCGACGAGGACCa-CGaCGAc -3'
miRNA:   3'- uugAGC-GUGCUGCUCUUGGagGC-GCU- -5'
7314 3' -55.9 NC_001900.1 + 34750 0.66 0.617335
Target:  5'- cGGCUCGCAUGGCGAuGAugCaCUggGCGGa -3'
miRNA:   3'- -UUGAGCGUGCUGCU-CUugGaGG--CGCU- -5'
7314 3' -55.9 NC_001900.1 + 37335 0.67 0.606292
Target:  5'- uGAUcCGCugGGCGAacuCCUCCGaCGAa -3'
miRNA:   3'- -UUGaGCGugCUGCUcuuGGAGGC-GCU- -5'
7314 3' -55.9 NC_001900.1 + 20140 0.67 0.595272
Target:  5'- gAGCU-GCGCGACGGcGACUUCCGUc- -3'
miRNA:   3'- -UUGAgCGUGCUGCUcUUGGAGGCGcu -5'
7314 3' -55.9 NC_001900.1 + 22678 0.67 0.584283
Target:  5'- cGACUCGacaACG-CGAucacccuCCUCCGCGAg -3'
miRNA:   3'- -UUGAGCg--UGCuGCUcuu----GGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 33202 0.69 0.477871
Target:  5'- cAACgcccaGguCGACcAGAGCCUCCGUGAc -3'
miRNA:   3'- -UUGag---CguGCUGcUCUUGGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 11179 0.69 0.467725
Target:  5'- aGGCUgGcCGCGAUcugGAGAAgUUCCGCGAa -3'
miRNA:   3'- -UUGAgC-GUGCUG---CUCUUgGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 39051 0.69 0.457691
Target:  5'- uAC-CGCugGAUGA---CCUCCGCGAu -3'
miRNA:   3'- uUGaGCGugCUGCUcuuGGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 11857 0.7 0.432157
Target:  5'- -uCUUGCAgGGCGAGGacGCCgacucgaucgccgagUCCGCGAa -3'
miRNA:   3'- uuGAGCGUgCUGCUCU--UGG---------------AGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 47842 0.7 0.409341
Target:  5'- gGACUCGCGugccgUGACGcGAACCU-CGCGGu -3'
miRNA:   3'- -UUGAGCGU-----GCUGCuCUUGGAgGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 46672 0.7 0.40934
Target:  5'- cGACgCGUACGACGAcGGGCUgaccuUCCGUGAg -3'
miRNA:   3'- -UUGaGCGUGCUGCU-CUUGG-----AGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 6007 0.7 0.390911
Target:  5'- --aUCgGCGCGAgcCGGuGACCUCCGCGAg -3'
miRNA:   3'- uugAG-CGUGCU--GCUcUUGGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 13219 0.7 0.390004
Target:  5'- ---gCGCugGGCGucucgucGGAGaCCUCCGCGAa -3'
miRNA:   3'- uugaGCGugCUGC-------UCUU-GGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 25242 0.71 0.347272
Target:  5'- aGGCUCGCcucguaccCGGCccGAGCCUCUGCGAg -3'
miRNA:   3'- -UUGAGCGu-------GCUGcuCUUGGAGGCGCU- -5'
7314 3' -55.9 NC_001900.1 + 3768 0.72 0.314948
Target:  5'- cGCUCGUuCGAUGAGGucggcgucgucACCUUCGCGGu -3'
miRNA:   3'- uUGAGCGuGCUGCUCU-----------UGGAGGCGCU- -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.