miRNA display CGI


Results 1 - 20 of 57 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
23365 5' -59.1 NC_005259.1 + 1850 0.66 0.582353
Target:  5'- cGCCGAGGC-CGagaaAGCC-GcCGCcGCGu -3'
miRNA:   3'- -CGGCUCCGuGUg---UCGGuCaGCGuCGC- -5'
23365 5' -59.1 NC_005259.1 + 19305 0.71 0.315107
Target:  5'- cGCCGAGGCACucgaggaAGCCA-UCGC-GCu -3'
miRNA:   3'- -CGGCUCCGUGug-----UCGGUcAGCGuCGc -5'
23365 5' -59.1 NC_005259.1 + 63720 0.71 0.315107
Target:  5'- aUCGGGGCcuGCGCAGCCGGUaGCgacaucucGGCGg -3'
miRNA:   3'- cGGCUCCG--UGUGUCGGUCAgCG--------UCGC- -5'
23365 5' -59.1 NC_005259.1 + 66223 0.71 0.315107
Target:  5'- cGCCGAcGCACacgcggucguGCAGCCAucGaCGCAGCGc -3'
miRNA:   3'- -CGGCUcCGUG----------UGUCGGU--CaGCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 60531 0.7 0.338124
Target:  5'- gGCCG-GGCcgggACGCAGCCGcUCGuCGGCa -3'
miRNA:   3'- -CGGCuCCG----UGUGUCGGUcAGC-GUCGc -5'
23365 5' -59.1 NC_005259.1 + 42545 0.7 0.345264
Target:  5'- aCCGAGGUggcgggcagcucgGCgaGCAGCCGGUCGUcaucgauaGGCGu -3'
miRNA:   3'- cGGCUCCG-------------UG--UGUCGGUCAGCG--------UCGC- -5'
23365 5' -59.1 NC_005259.1 + 58548 0.7 0.345264
Target:  5'- cGUCGAGGUuacggcucgggcgGUugGGCCGGaUCGCGGCGc -3'
miRNA:   3'- -CGGCUCCG-------------UGugUCGGUC-AGCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 44273 0.7 0.354136
Target:  5'- aUCGAGGCcgaACGCcuuGGCCAG-CGCgAGCGg -3'
miRNA:   3'- cGGCUCCG---UGUG---UCGGUCaGCG-UCGC- -5'
23365 5' -59.1 NC_005259.1 + 68699 0.7 0.354136
Target:  5'- aUCGAGGCGgGCAGCgC-GUCGguGCc -3'
miRNA:   3'- cGGCUCCGUgUGUCG-GuCAGCguCGc -5'
23365 5' -59.1 NC_005259.1 + 54488 0.71 0.307702
Target:  5'- cGCCGAGGguCAuCGGCgGGcaUgGCGGCGa -3'
miRNA:   3'- -CGGCUCCguGU-GUCGgUC--AgCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 13432 0.71 0.304778
Target:  5'- cGCCGGGGC-CGC-GCUAGgcgugaccgucggCGCGGCGc -3'
miRNA:   3'- -CGGCUCCGuGUGuCGGUCa------------GCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 2128 0.71 0.300431
Target:  5'- cGCCGAGGuCACGCAGacccgcaCGGUgcuggccaGCGGCGu -3'
miRNA:   3'- -CGGCUCC-GUGUGUCg------GUCAg-------CGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 41074 0.75 0.159544
Target:  5'- gGCuCGAuGuCACGCAGCCGGUCGUAGuCGg -3'
miRNA:   3'- -CG-GCUcC-GUGUGUCGGUCAGCGUC-GC- -5'
23365 5' -59.1 NC_005259.1 + 11314 0.74 0.191575
Target:  5'- gGCCGAgacgGGCGCGCAGCUcGUCGuCGGUc -3'
miRNA:   3'- -CGGCU----CCGUGUGUCGGuCAGC-GUCGc -5'
23365 5' -59.1 NC_005259.1 + 29938 0.73 0.206955
Target:  5'- gGCCGc--CACGCGGcCCGGUCGCGGCu -3'
miRNA:   3'- -CGGCuccGUGUGUC-GGUCAGCGUCGc -5'
23365 5' -59.1 NC_005259.1 + 3074 0.73 0.229111
Target:  5'- gGCCGAGGCcgACAagagAGCCg--CGCAGCGa -3'
miRNA:   3'- -CGGCUCCG--UGUg---UCGGucaGCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 24238 0.73 0.229111
Target:  5'- gGCCGAGGCACGCgaguucGGCgAGUgcgUGCAcGCGu -3'
miRNA:   3'- -CGGCUCCGUGUG------UCGgUCA---GCGU-CGC- -5'
23365 5' -59.1 NC_005259.1 + 42058 0.73 0.234955
Target:  5'- cUCGGGGUGgGCGGCUAGguaUCGCAGCa -3'
miRNA:   3'- cGGCUCCGUgUGUCGGUC---AGCGUCGc -5'
23365 5' -59.1 NC_005259.1 + 53163 0.72 0.258308
Target:  5'- cGCCGAGGCcgaucucgccacCGCcGCCcGUCGCGGUGu -3'
miRNA:   3'- -CGGCUCCGu-----------GUGuCGGuCAGCGUCGC- -5'
23365 5' -59.1 NC_005259.1 + 52151 0.72 0.266067
Target:  5'- cGCCGAGGCAgGCAgcGCCgAGgcgcucaUGCAGCa -3'
miRNA:   3'- -CGGCUCCGUgUGU--CGG-UCa------GCGUCGc -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.