miRNA display CGI


Results 1 - 20 of 39 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
11942 3' -58 NC_003278.1 + 32698 0.66 0.442786
Target:  5'- gGAGUacGUGCcuuGGCCGGGcgacuuGACGCCGa -3'
miRNA:   3'- aCUCGgcUACG---CCGGUCCu-----UUGCGGU- -5'
11942 3' -58 NC_003278.1 + 29705 0.66 0.442786
Target:  5'- -cGGCCGG-GCGGaCgAGGAAG-GCCAg -3'
miRNA:   3'- acUCGGCUaCGCC-GgUCCUUUgCGGU- -5'
11942 3' -58 NC_003278.1 + 2561 0.66 0.432879
Target:  5'- -uGGCCGGuguugucguUGCGGCCGGcGGuauaggugaacuGGCGCCc -3'
miRNA:   3'- acUCGGCU---------ACGCCGGUC-CU------------UUGCGGu -5'
11942 3' -58 NC_003278.1 + 13051 0.66 0.432879
Target:  5'- cGAGCgGgcGCagauGGCCuGGGAAgGCCu -3'
miRNA:   3'- aCUCGgCuaCG----CCGGuCCUUUgCGGu -5'
11942 3' -58 NC_003278.1 + 13201 0.66 0.413461
Target:  5'- aUGGGCUGA--CGGCCgAGGcauCGCCGa -3'
miRNA:   3'- -ACUCGGCUacGCCGG-UCCuuuGCGGU- -5'
11942 3' -58 NC_003278.1 + 9379 0.66 0.413461
Target:  5'- gUGAGCCuucUGC-GCCAGGuguuguacAGCGCCGc -3'
miRNA:   3'- -ACUCGGcu-ACGcCGGUCCu-------UUGCGGU- -5'
11942 3' -58 NC_003278.1 + 9488 0.66 0.413461
Target:  5'- -aGGCCGAguUGGCgAGGAAA-GCCAg -3'
miRNA:   3'- acUCGGCUacGCCGgUCCUUUgCGGU- -5'
11942 3' -58 NC_003278.1 + 8113 0.66 0.403955
Target:  5'- cGuGCCG--GUGGCCAGccAGGCGCCGa -3'
miRNA:   3'- aCuCGGCuaCGCCGGUCc-UUUGCGGU- -5'
11942 3' -58 NC_003278.1 + 35518 0.66 0.394589
Target:  5'- aGAGCgGAggcGUGGCgGGGGGACGaCU- -3'
miRNA:   3'- aCUCGgCUa--CGCCGgUCCUUUGC-GGu -5'
11942 3' -58 NC_003278.1 + 27015 0.66 0.39366
Target:  5'- cUGcGCCGAcuucggcaugucgUGCGGCCAGGuguuGGCGgUg -3'
miRNA:   3'- -ACuCGGCU-------------ACGCCGGUCCu---UUGCgGu -5'
11942 3' -58 NC_003278.1 + 13894 0.66 0.390882
Target:  5'- cGAGCCGAcgggcucgaccacGCGGCgCAGG--GCGCuCAa -3'
miRNA:   3'- aCUCGGCUa------------CGCCG-GUCCuuUGCG-GU- -5'
11942 3' -58 NC_003278.1 + 8870 0.67 0.385364
Target:  5'- cGAGUCGAa-CGGCCAGGGguuccugggcAACGgCAa -3'
miRNA:   3'- aCUCGGCUacGCCGGUCCU----------UUGCgGU- -5'
11942 3' -58 NC_003278.1 + 8716 0.67 0.385364
Target:  5'- cGGcGCCGAaGUGGCCguccucguagAGGuuGGCGCCGg -3'
miRNA:   3'- aCU-CGGCUaCGCCGG----------UCCu-UUGCGGU- -5'
11942 3' -58 NC_003278.1 + 20230 0.67 0.382625
Target:  5'- --cGCCGAgcaUGCGGaugucgacguuguuCCGGGuGAACGCCGc -3'
miRNA:   3'- acuCGGCU---ACGCC--------------GGUCC-UUUGCGGU- -5'
11942 3' -58 NC_003278.1 + 4967 0.67 0.376283
Target:  5'- -aAGCCGAguuCGGCCAGGucGGCggGCCGu -3'
miRNA:   3'- acUCGGCUac-GCCGGUCCu-UUG--CGGU- -5'
11942 3' -58 NC_003278.1 + 20900 0.67 0.376283
Target:  5'- cGGGCCGAgaaUGcCGGCgAGGGugauggcaaGGCuGCCAa -3'
miRNA:   3'- aCUCGGCU---AC-GCCGgUCCU---------UUG-CGGU- -5'
11942 3' -58 NC_003278.1 + 32154 0.67 0.365578
Target:  5'- cGAGCUGG-GCGGUCuggcccagucgcGGAAGCGCUu -3'
miRNA:   3'- aCUCGGCUaCGCCGGu-----------CCUUUGCGGu -5'
11942 3' -58 NC_003278.1 + 27502 0.67 0.358559
Target:  5'- aGAGCCGAUcUGGCUGGGcaucgacuGGgGCCAg -3'
miRNA:   3'- aCUCGGCUAcGCCGGUCCu-------UUgCGGU- -5'
11942 3' -58 NC_003278.1 + 19798 0.67 0.349919
Target:  5'- --uGCCGGUGcCGGCCAgcgcGGcAGCGCUc -3'
miRNA:   3'- acuCGGCUAC-GCCGGU----CCuUUGCGGu -5'
11942 3' -58 NC_003278.1 + 7252 0.67 0.341428
Target:  5'- uUGAGaaGAUcGCGGCCGGcu-AUGCCGa -3'
miRNA:   3'- -ACUCggCUA-CGCCGGUCcuuUGCGGU- -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.