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
23260 5' -59.9 NC_005259.1 + 67973 0.68 0.442025
Target:  5'- cGCGCGCaGCGGcGuGGCCACCgccgcgaGCGuCGACu -3'
miRNA:   3'- -CGUGUG-CGCC-C-UUGGUGGg------CGC-GCUG- -5'
23260 5' -59.9 NC_005259.1 + 66229 0.74 0.184493
Target:  5'- cGCACACGCGGucgugcAGCCAUCgacgcaGCGCGGCc -3'
miRNA:   3'- -CGUGUGCGCCc-----UUGGUGGg-----CGCGCUG- -5'
23260 5' -59.9 NC_005259.1 + 66105 0.66 0.529243
Target:  5'- aGCGCACGCGcGAcuuCUACgCGCGuCGAg -3'
miRNA:   3'- -CGUGUGCGCcCUu--GGUGgGCGC-GCUg -5'
23260 5' -59.9 NC_005259.1 + 66012 0.66 0.559761
Target:  5'- uGCGCACccuCGGG-GCCGCacguguugCGCGCGAg -3'
miRNA:   3'- -CGUGUGc--GCCCuUGGUGg-------GCGCGCUg -5'
23260 5' -59.9 NC_005259.1 + 65130 0.67 0.470247
Target:  5'- gGCGCAC-CGGcGGCCACCC-C-CGACa -3'
miRNA:   3'- -CGUGUGcGCCcUUGGUGGGcGcGCUG- -5'
23260 5' -59.9 NC_005259.1 + 63702 0.66 0.519203
Target:  5'- uGCGCcugcccaGCGGGGAUCgggGCCUGCGCaGCc -3'
miRNA:   3'- -CGUGug-----CGCCCUUGG---UGGGCGCGcUG- -5'
23260 5' -59.9 NC_005259.1 + 63011 0.71 0.274795
Target:  5'- gGCAgGCuGUGGGAACUcgauGCCCGCGagcuGACu -3'
miRNA:   3'- -CGUgUG-CGCCCUUGG----UGGGCGCg---CUG- -5'
23260 5' -59.9 NC_005259.1 + 62845 0.68 0.432832
Target:  5'- -aGCGCGCGGuuGAcgagcaGCCGCUCGgCGCGAg -3'
miRNA:   3'- cgUGUGCGCC--CU------UGGUGGGC-GCGCUg -5'
23260 5' -59.9 NC_005259.1 + 60243 0.66 0.559761
Target:  5'- gGCACGCuugcguGCGGGugcaaggcuGGCCACCaGCGCuGCc -3'
miRNA:   3'- -CGUGUG------CGCCC---------UUGGUGGgCGCGcUG- -5'
23260 5' -59.9 NC_005259.1 + 56092 0.66 0.539353
Target:  5'- gGUGCuCGUcGGGGCCA-CCGCGUGGCc -3'
miRNA:   3'- -CGUGuGCGcCCUUGGUgGGCGCGCUG- -5'
23260 5' -59.9 NC_005259.1 + 55450 0.66 0.570046
Target:  5'- -aACGCGUacaGGGCCACCCGUGCa-- -3'
miRNA:   3'- cgUGUGCGcc-CUUGGUGGGCGCGcug -5'
23260 5' -59.9 NC_005259.1 + 53994 0.66 0.569016
Target:  5'- uGCACagcuccaACGcCGGGGuCCACCa--GCGACg -3'
miRNA:   3'- -CGUG-------UGC-GCCCUuGGUGGgcgCGCUG- -5'
23260 5' -59.9 NC_005259.1 + 53037 0.69 0.363528
Target:  5'- gGCAUcgugaccuCGCGGGAAaUugCUGCGUGACg -3'
miRNA:   3'- -CGUGu-------GCGCCCUUgGugGGCGCGCUG- -5'
23260 5' -59.9 NC_005259.1 + 50119 0.68 0.405938
Target:  5'- cGUACGCaCGGGcACCGCCaCaCGCGAUu -3'
miRNA:   3'- -CGUGUGcGCCCuUGGUGG-GcGCGCUG- -5'
23260 5' -59.9 NC_005259.1 + 48792 0.67 0.479857
Target:  5'- --uCAgGCGGGAACguCCCGC-CGAg -3'
miRNA:   3'- cguGUgCGCCCUUGguGGGCGcGCUg -5'
23260 5' -59.9 NC_005259.1 + 48605 0.66 0.570046
Target:  5'- ---aGCGCGGGcGCUACcgCCGUGCGcACu -3'
miRNA:   3'- cgugUGCGCCCuUGGUG--GGCGCGC-UG- -5'
23260 5' -59.9 NC_005259.1 + 48055 0.66 0.519203
Target:  5'- gGC-CACgGCGGGuagcGCCGCCgCGCccugaGCGAUg -3'
miRNA:   3'- -CGuGUG-CGCCCu---UGGUGG-GCG-----CGCUG- -5'
23260 5' -59.9 NC_005259.1 + 45869 0.68 0.451327
Target:  5'- gGCAUGC-CGGGGaacagGCCACCCGCuGUGu- -3'
miRNA:   3'- -CGUGUGcGCCCU-----UGGUGGGCG-CGCug -5'
23260 5' -59.9 NC_005259.1 + 45767 0.66 0.539353
Target:  5'- aGCACGCccucgcCGGGuGCCAgcaCCGCGuUGACg -3'
miRNA:   3'- -CGUGUGc-----GCCCuUGGUg--GGCGC-GCUG- -5'
23260 5' -59.9 NC_005259.1 + 43679 0.66 0.519203
Target:  5'- uCACACcgccgccgGUGGcGAACCucuugaaaCCGCGCGACc -3'
miRNA:   3'- cGUGUG--------CGCC-CUUGGug------GGCGCGCUG- -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.