miRNA display CGI


Results 21 - 39 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
8545 3' -55.3 NC_002169.1 + 22520 0.69 0.814926
Target:  5'- uUUCCGGCcGGCaCGUGCUG-GCCGAgCa -3'
miRNA:   3'- -AGGGCUGcUUG-GUAUGACgCGGCUgG- -5'
8545 3' -55.3 NC_002169.1 + 1089 0.69 0.806163
Target:  5'- cUCCCGAUGGAguugcccgauuCCAUuaccacGCUGaCGgCGGCCa -3'
miRNA:   3'- -AGGGCUGCUU-----------GGUA------UGAC-GCgGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 110339 0.69 0.797244
Target:  5'- aCuuGACGuacACCGUAUUGuUGCUGACUg -3'
miRNA:   3'- aGggCUGCu--UGGUAUGAC-GCGGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 78032 0.69 0.796344
Target:  5'- gCCCGACGAacgcuucgacgcgACCucgaAUACgugcGUGCCGAUCc -3'
miRNA:   3'- aGGGCUGCU-------------UGG----UAUGa---CGCGGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 37581 0.71 0.701334
Target:  5'- aUCUCGACGAACUGacucUAUUGCGaUCGACa -3'
miRNA:   3'- -AGGGCUGCUUGGU----AUGACGC-GGCUGg -5'
8545 3' -55.3 NC_002169.1 + 45820 0.71 0.691272
Target:  5'- -aCCGGCGAuuucACCAgauUGCU-CGCCGACUc -3'
miRNA:   3'- agGGCUGCU----UGGU---AUGAcGCGGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 76510 0.68 0.840185
Target:  5'- cCCCGACGAuCCGcuuUGCaaUGCuCCGACg -3'
miRNA:   3'- aGGGCUGCUuGGU---AUG--ACGcGGCUGg -5'
8545 3' -55.3 NC_002169.1 + 26010 0.67 0.871193
Target:  5'- gCCCGAuuugucgcCGAaggcacuuaGCCGgucgGCgGCGCCGGCUg -3'
miRNA:   3'- aGGGCU--------GCU---------UGGUa---UGaCGCGGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 85937 0.66 0.938124
Target:  5'- -aUCGugGAuGCCuUGC-GCGCCGGCg -3'
miRNA:   3'- agGGCugCU-UGGuAUGaCGCGGCUGg -5'
8545 3' -55.3 NC_002169.1 + 82773 0.66 0.938124
Target:  5'- gCCCGAuCGuAUC-UAUUGaCGCCGACa -3'
miRNA:   3'- aGGGCU-GCuUGGuAUGAC-GCGGCUGg -5'
8545 3' -55.3 NC_002169.1 + 123389 0.66 0.933218
Target:  5'- aCCCG-CGGGCCGcaUGCcgGCGacagggaacaCGACCa -3'
miRNA:   3'- aGGGCuGCUUGGU--AUGa-CGCg---------GCUGG- -5'
8545 3' -55.3 NC_002169.1 + 14328 0.66 0.932714
Target:  5'- -gCCGGCGAauaugucGCCGUugU-CGUCGACa -3'
miRNA:   3'- agGGCUGCU-------UGGUAugAcGCGGCUGg -5'
8545 3' -55.3 NC_002169.1 + 58881 0.66 0.928074
Target:  5'- uUCUCGAUcAACUAcUAUcgGCGCCGACg -3'
miRNA:   3'- -AGGGCUGcUUGGU-AUGa-CGCGGCUGg -5'
8545 3' -55.3 NC_002169.1 + 30830 0.66 0.927546
Target:  5'- gCCCGucaagucACGGGCCGU-CUGCGUuucuacguCGAUCg -3'
miRNA:   3'- aGGGC-------UGCUUGGUAuGACGCG--------GCUGG- -5'
8545 3' -55.3 NC_002169.1 + 37428 0.66 0.91121
Target:  5'- gUUCCGACGAagGCCucACcauCGUCGGCCg -3'
miRNA:   3'- -AGGGCUGCU--UGGuaUGac-GCGGCUGG- -5'
8545 3' -55.3 NC_002169.1 + 100118 0.67 0.905115
Target:  5'- gUCUGACGGccuuuucaauACCAcgacCUGCGCCG-CCu -3'
miRNA:   3'- aGGGCUGCU----------UGGUau--GACGCGGCuGG- -5'
8545 3' -55.3 NC_002169.1 + 69963 0.67 0.885437
Target:  5'- aCUCGACG-ACCAcAUcgGUGCcCGACCu -3'
miRNA:   3'- aGGGCUGCuUGGUaUGa-CGCG-GCUGG- -5'
8545 3' -55.3 NC_002169.1 + 40772 0.67 0.878424
Target:  5'- -gCCGACGAAgguaUAUACUGCGaCGAUg -3'
miRNA:   3'- agGGCUGCUUg---GUAUGACGCgGCUGg -5'
8545 3' -55.3 NC_002169.1 + 129846 0.76 0.443743
Target:  5'- uUCCCGGgGAAcCCAUACUGUuUCGACUg -3'
miRNA:   3'- -AGGGCUgCUU-GGUAUGACGcGGCUGG- -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.