miRNA display CGI


Results 21 - 40 of 49 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
8090 3' -54.7 NC_001978.2 + 25706 0.68 0.537354
Target:  5'- -gCCAUAcGGCGCCCAGCgCUGCccguCCGg -3'
miRNA:   3'- cgGGUAU-UCGUGGGUUG-GGCGuu--GGU- -5'
8090 3' -54.7 NC_001978.2 + 34660 0.68 0.548407
Target:  5'- aGCCCcguuGCACCCGGCaCgguucggagUGCGACCGg -3'
miRNA:   3'- -CGGGuauuCGUGGGUUG-G---------GCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 25505 0.68 0.548407
Target:  5'- aGCCCc--AGCGCCuCAGCCUggGCGACg- -3'
miRNA:   3'- -CGGGuauUCGUGG-GUUGGG--CGUUGgu -5'
8090 3' -54.7 NC_001978.2 + 11204 0.67 0.55953
Target:  5'- aCCCAUGacaAGCcCCCGauACUCGCAuguCCAg -3'
miRNA:   3'- cGGGUAU---UCGuGGGU--UGGGCGUu--GGU- -5'
8090 3' -54.7 NC_001978.2 + 17756 0.67 0.55953
Target:  5'- -aCC-UGGGCGCCaCGugcCCCGUAGCCGu -3'
miRNA:   3'- cgGGuAUUCGUGG-GUu--GGGCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 33206 0.67 0.55953
Target:  5'- -gCCGUA-GCGCCCAACuCCGUucaggacauGCCGa -3'
miRNA:   3'- cgGGUAUuCGUGGGUUG-GGCGu--------UGGU- -5'
8090 3' -54.7 NC_001978.2 + 25869 0.67 0.563998
Target:  5'- aGCCCuucagaccuuCGgCCAGCuCCGCGACCAa -3'
miRNA:   3'- -CGGGuauuc-----GUgGGUUG-GGCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 40866 0.67 0.566235
Target:  5'- cGCCCGgcuucuuauugaaGAGCGCUCGACCCuCAaugacGCCGa -3'
miRNA:   3'- -CGGGUa------------UUCGUGGGUUGGGcGU-----UGGU- -5'
8090 3' -54.7 NC_001978.2 + 7885 0.67 0.567354
Target:  5'- uUCCGUGuGCucgACCCGggcgacggcgugacGCCCGCAAUCAa -3'
miRNA:   3'- cGGGUAUuCG---UGGGU--------------UGGGCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 3227 0.67 0.569595
Target:  5'- gGCCCAUAc-CGCCCGGCUCaGCGuucggauagucgaGCCAu -3'
miRNA:   3'- -CGGGUAUucGUGGGUUGGG-CGU-------------UGGU- -5'
8090 3' -54.7 NC_001978.2 + 15998 0.67 0.570716
Target:  5'- cGCCCGUc-GCGCCCGugUCGCccuugucGCCc -3'
miRNA:   3'- -CGGGUAuuCGUGGGUugGGCGu------UGGu -5'
8090 3' -54.7 NC_001978.2 + 30372 0.67 0.581955
Target:  5'- cGCgCcgAAGcCGCCCGGCUCGCGuggcaggguGCCGu -3'
miRNA:   3'- -CGgGuaUUC-GUGGGUUGGGCGU---------UGGU- -5'
8090 3' -54.7 NC_001978.2 + 9162 0.67 0.604556
Target:  5'- aCCCA--GGCGCUUAGCCU-CAGCCGg -3'
miRNA:   3'- cGGGUauUCGUGGGUUGGGcGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 33504 0.67 0.604556
Target:  5'- gGCUCAgc-GCGCggucuuucuUCGGCCCGUAGCCGu -3'
miRNA:   3'- -CGGGUauuCGUG---------GGUUGGGCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 732 0.67 0.609091
Target:  5'- cGCCCuuguuggcGUAGGCGCCgAaggugaagccgacgaGCCgGUAACCGu -3'
miRNA:   3'- -CGGG--------UAUUCGUGGgU---------------UGGgCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 12208 0.66 0.6159
Target:  5'- uGCCCccgAUAAGgACCguGCcggagccgaCCGCAACCGu -3'
miRNA:   3'- -CGGG---UAUUCgUGGguUG---------GGCGUUGGU- -5'
8090 3' -54.7 NC_001978.2 + 23800 0.66 0.6159
Target:  5'- uGCCgacuaGUGgcAGCGCUCGACCCgGCGucGCCGg -3'
miRNA:   3'- -CGGg----UAU--UCGUGGGUUGGG-CGU--UGGU- -5'
8090 3' -54.7 NC_001978.2 + 28053 0.66 0.6159
Target:  5'- aCCCGUcGGCGCCgGACaCUcaggGCGACCu -3'
miRNA:   3'- cGGGUAuUCGUGGgUUG-GG----CGUUGGu -5'
8090 3' -54.7 NC_001978.2 + 36905 0.66 0.6159
Target:  5'- uGCCgGUcGGCACCCugccACCUGCGGaagaaguucgcCCAg -3'
miRNA:   3'- -CGGgUAuUCGUGGGu---UGGGCGUU-----------GGU- -5'
8090 3' -54.7 NC_001978.2 + 19862 0.66 0.6159
Target:  5'- uGCgCAUuGGCGCCguGCCgGgGGCCGa -3'
miRNA:   3'- -CGgGUAuUCGUGGguUGGgCgUUGGU- -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.