miRNA display CGI


Results 1 - 20 of 91 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
11939 3' -62.8 NC_003278.1 + 34572 0.74 0.057424
Target:  5'- -aGGUGGCcauGCCACCAGccguuGCGCAGCGUa -3'
miRNA:   3'- ugUCGCCG---UGGUGGUC-----CGCGUCGCGc -5'
11939 3' -62.8 NC_003278.1 + 32641 0.69 0.137605
Target:  5'- cCAGCGGCGCaCGCCGuacugcuGGUauuGCAGgGCGu -3'
miRNA:   3'- uGUCGCCGUG-GUGGU-------CCG---CGUCgCGC- -5'
11939 3' -62.8 NC_003278.1 + 32590 0.69 0.149011
Target:  5'- uACGGCGuGCGCCGCUggaccgacaccucGGGCGCcaucaucGGCGUc -3'
miRNA:   3'- -UGUCGC-CGUGGUGG-------------UCCGCG-------UCGCGc -5'
11939 3' -62.8 NC_003278.1 + 32491 0.7 0.11684
Target:  5'- gACAGCacgGGCACCAUCGccGGuCGCAGCaGCc -3'
miRNA:   3'- -UGUCG---CCGUGGUGGU--CC-GCGUCG-CGc -5'
11939 3' -62.8 NC_003278.1 + 32350 0.73 0.072255
Target:  5'- cCGGCGGCgucgauAUCGCCGGGCaGCGGCauGCGg -3'
miRNA:   3'- uGUCGCCG------UGGUGGUCCG-CGUCG--CGC- -5'
11939 3' -62.8 NC_003278.1 + 32178 0.68 0.171634
Target:  5'- -gAGUGGUuuCCGCCAcGGCGUAGC-CGa -3'
miRNA:   3'- ugUCGCCGu-GGUGGU-CCGCGUCGcGC- -5'
11939 3' -62.8 NC_003278.1 + 32073 0.67 0.20311
Target:  5'- uCAGCGGCACCgggucaucagcccauGCCucGCccaucagccagauGCAGCGCa -3'
miRNA:   3'- uGUCGCCGUGG---------------UGGucCG-------------CGUCGCGc -5'
11939 3' -62.8 NC_003278.1 + 31920 0.72 0.080989
Target:  5'- cCGGuCGGCGcCCGCCGgcGGCGCGGCGg- -3'
miRNA:   3'- uGUC-GCCGU-GGUGGU--CCGCGUCGCgc -5'
11939 3' -62.8 NC_003278.1 + 31807 0.68 0.167057
Target:  5'- aGCAG-GGUGCCcgggacaccgGCCAGGCGCucgaAGuCGCGg -3'
miRNA:   3'- -UGUCgCCGUGG----------UGGUCCGCG----UC-GCGC- -5'
11939 3' -62.8 NC_003278.1 + 31679 0.71 0.098749
Target:  5'- --uGCGGCGCCGCCgcccAGGCcGCAGCa-- -3'
miRNA:   3'- uguCGCCGUGGUGG----UCCG-CGUCGcgc -5'
11939 3' -62.8 NC_003278.1 + 31631 0.8 0.018952
Target:  5'- gGCGGCGGCGCCgcaggcuucaACCGGGCGCGucCGCGg -3'
miRNA:   3'- -UGUCGCCGUGG----------UGGUCCGCGUc-GCGC- -5'
11939 3' -62.8 NC_003278.1 + 31222 0.67 0.186041
Target:  5'- cGCAGUccucGCACCAgaGGGCGCugGGCGCc -3'
miRNA:   3'- -UGUCGc---CGUGGUggUCCGCG--UCGCGc -5'
11939 3' -62.8 NC_003278.1 + 31191 0.66 0.223848
Target:  5'- aGCAGauacccgaGGCccGCCGCCAGGCuGCuccgGGCuGCGa -3'
miRNA:   3'- -UGUCg-------CCG--UGGUGGUCCG-CG----UCG-CGC- -5'
11939 3' -62.8 NC_003278.1 + 31135 0.71 0.101569
Target:  5'- cCAGCGGaCAaacacCCGCCuGGCGCccAGCGCc -3'
miRNA:   3'- uGUCGCC-GU-----GGUGGuCCGCG--UCGCGc -5'
11939 3' -62.8 NC_003278.1 + 30317 1.07 0.000123
Target:  5'- gACAGCGGCACCACCAGGCGCAGCGCGu -3'
miRNA:   3'- -UGUCGCCGUGGUGGUCCGCGUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 29881 0.79 0.021952
Target:  5'- -uGGCGGCGCCGCC-GGCGCGGCuguugucgcuGCGg -3'
miRNA:   3'- ugUCGCCGUGGUGGuCCGCGUCG----------CGC- -5'
11939 3' -62.8 NC_003278.1 + 28914 0.71 0.096003
Target:  5'- uCGGCGGCACUcUCGGcGaucaGCAGCGCGc -3'
miRNA:   3'- uGUCGCCGUGGuGGUC-Cg---CGUCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 28493 0.75 0.049701
Target:  5'- -gGGUgGGCACCACCAGaCGCcGCGCGg -3'
miRNA:   3'- ugUCG-CCGUGGUGGUCcGCGuCGCGC- -5'
11939 3' -62.8 NC_003278.1 + 28093 0.66 0.223848
Target:  5'- gACAGCcccuGGUucauCCGCUgcGGGCGCGGCaaguGCGg -3'
miRNA:   3'- -UGUCG----CCGu---GGUGG--UCCGCGUCG----CGC- -5'
11939 3' -62.8 NC_003278.1 + 27170 0.67 0.186041
Target:  5'- -aGGUGGCGCCG-CAGaGCGCGuuugugcauuGCGCGu -3'
miRNA:   3'- ugUCGCCGUGGUgGUC-CGCGU----------CGCGC- -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.