miRNA display CGI


Results 1 - 20 of 36 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
25807 3' -60 NC_005337.1 + 118932 0.66 0.724938
Target:  5'- aGCGUCGcGCGGGcGCAgCGUgcgUCGCGc -3'
miRNA:   3'- -UGUAGC-CGCCCcCGU-GCGagaAGCGU- -5'
25807 3' -60 NC_005337.1 + 41851 0.66 0.705315
Target:  5'- uCGUCgGGCGGGaGCGgGCUCguggCGUAg -3'
miRNA:   3'- uGUAG-CCGCCCcCGUgCGAGaa--GCGU- -5'
25807 3' -60 NC_005337.1 + 120451 0.66 0.705315
Target:  5'- -aGUCccuGC-GGGGCGCGCUCgagCGCGc -3'
miRNA:   3'- ugUAGc--CGcCCCCGUGCGAGaa-GCGU- -5'
25807 3' -60 NC_005337.1 + 17003 0.66 0.705315
Target:  5'- cAUAUCgGGCGGGGccucgacguccaGCGCGCaCUgcgUCGCGu -3'
miRNA:   3'- -UGUAG-CCGCCCC------------CGUGCGaGA---AGCGU- -5'
25807 3' -60 NC_005337.1 + 77885 0.66 0.699378
Target:  5'- aGC-UCGGUGGGGuucaccuuguaccccGCGCGCgccaUCUUCaGCAg -3'
miRNA:   3'- -UGuAGCCGCCCC---------------CGUGCG----AGAAG-CGU- -5'
25807 3' -60 NC_005337.1 + 66080 0.66 0.695409
Target:  5'- cGCAgCGGCGcccccGGGGcCGCGCUCagggCGUAc -3'
miRNA:   3'- -UGUaGCCGC-----CCCC-GUGCGAGaa--GCGU- -5'
25807 3' -60 NC_005337.1 + 123703 0.66 0.685452
Target:  5'- cCGUgCGGCGGcuGGGCACGC-CcgUGCGg -3'
miRNA:   3'- uGUA-GCCGCC--CCCGUGCGaGaaGCGU- -5'
25807 3' -60 NC_005337.1 + 96083 0.66 0.685452
Target:  5'- ---cCGGCGuacacGGGGCACGCggg-CGCGg -3'
miRNA:   3'- uguaGCCGC-----CCCCGUGCGagaaGCGU- -5'
25807 3' -60 NC_005337.1 + 39941 0.66 0.675451
Target:  5'- uGCG-CGGCGGGcGCcucgcgcggGCGCUCgaCGCAu -3'
miRNA:   3'- -UGUaGCCGCCCcCG---------UGCGAGaaGCGU- -5'
25807 3' -60 NC_005337.1 + 51940 0.66 0.675451
Target:  5'- gGCAUCGGCGGcauGGUggacaugucccuGCGCUCggUGCc -3'
miRNA:   3'- -UGUAGCCGCCc--CCG------------UGCGAGaaGCGu -5'
25807 3' -60 NC_005337.1 + 13773 0.67 0.665417
Target:  5'- aACG-CGGCGaGGGGCGCcaggucguaGCUCguguccgCGCGa -3'
miRNA:   3'- -UGUaGCCGC-CCCCGUG---------CGAGaa-----GCGU- -5'
25807 3' -60 NC_005337.1 + 57144 0.67 0.662401
Target:  5'- uGC-UCGGCGGcGGCACGCccgucggaaucaugUCcgCGCAg -3'
miRNA:   3'- -UGuAGCCGCCcCCGUGCG--------------AGaaGCGU- -5'
25807 3' -60 NC_005337.1 + 5466 0.67 0.645276
Target:  5'- cACA-CGGUGGuGcGGCAcCGCUCggugCGCAc -3'
miRNA:   3'- -UGUaGCCGCC-C-CCGU-GCGAGaa--GCGU- -5'
25807 3' -60 NC_005337.1 + 10911 0.67 0.645276
Target:  5'- uACAggGGCGGGGGCAgGUccUCgaagugcCGCGu -3'
miRNA:   3'- -UGUagCCGCCCCCGUgCG--AGaa-----GCGU- -5'
25807 3' -60 NC_005337.1 + 114164 0.67 0.645276
Target:  5'- --cUCGGUGGaGGaCGCGCUCU-CGCu -3'
miRNA:   3'- uguAGCCGCCcCC-GUGCGAGAaGCGu -5'
25807 3' -60 NC_005337.1 + 7055 0.67 0.635188
Target:  5'- gGCGggCGGCGGGGuuGCGCGCguagacgUGCAg -3'
miRNA:   3'- -UGUa-GCCGCCCC--CGUGCGagaa---GCGU- -5'
25807 3' -60 NC_005337.1 + 10210 0.67 0.635188
Target:  5'- -gGUCGGCaGGGGCAUuggcaGCUCcagcCGCGg -3'
miRNA:   3'- ugUAGCCGcCCCCGUG-----CGAGaa--GCGU- -5'
25807 3' -60 NC_005337.1 + 50389 0.67 0.625096
Target:  5'- cGCcUgGcGCGGGGGCGCGCcg--CGCGu -3'
miRNA:   3'- -UGuAgC-CGCCCCCGUGCGagaaGCGU- -5'
25807 3' -60 NC_005337.1 + 17073 0.67 0.625096
Target:  5'- aGCGacaGGCGGGcGGCACuccaGCUCUUC-CAu -3'
miRNA:   3'- -UGUag-CCGCCC-CCGUG----CGAGAAGcGU- -5'
25807 3' -60 NC_005337.1 + 91807 0.67 0.61501
Target:  5'- gGCggCGGUGGcGGGUAC-CgCUUCGCGa -3'
miRNA:   3'- -UGuaGCCGCC-CCCGUGcGaGAAGCGU- -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.