miRNA display CGI


Results 1 - 20 of 24 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
7148 5' -57.6 NC_001895.1 + 5703 0.66 0.459582
Target:  5'- cGGUGCGCUGGCgcaccugcaaCGuGCGACAcaGCUc -3'
miRNA:   3'- uCCGCGCGGUCGa---------GC-CGCUGUuaUGG- -5'
7148 5' -57.6 NC_001895.1 + 12069 0.66 0.43949
Target:  5'- -cGCGCcCCAGC-CGGUG-CuGUGCCg -3'
miRNA:   3'- ucCGCGcGGUCGaGCCGCuGuUAUGG- -5'
7148 5' -57.6 NC_001895.1 + 750 0.66 0.43949
Target:  5'- cGGGCGCGaaGGCugUCGGCucguugaagGACGGcACCc -3'
miRNA:   3'- -UCCGCGCggUCG--AGCCG---------CUGUUaUGG- -5'
7148 5' -57.6 NC_001895.1 + 2117 0.66 0.419908
Target:  5'- gGGGaCGCGCCAGCgccgcCGaacGCGugGAaAUCg -3'
miRNA:   3'- -UCC-GCGCGGUCGa----GC---CGCugUUaUGG- -5'
7148 5' -57.6 NC_001895.1 + 29972 0.67 0.400864
Target:  5'- cGGCGUGCuCAGaa-GGUGugGGaGCCg -3'
miRNA:   3'- uCCGCGCG-GUCgagCCGCugUUaUGG- -5'
7148 5' -57.6 NC_001895.1 + 4349 0.67 0.391551
Target:  5'- cGGUaGUGCUGGCgauggagcCGGUGACAccgAUACCa -3'
miRNA:   3'- uCCG-CGCGGUCGa-------GCCGCUGU---UAUGG- -5'
7148 5' -57.6 NC_001895.1 + 30596 0.67 0.390628
Target:  5'- gAGGauacUGCCAGCUUGacagucaGCGGCAGUAUCu -3'
miRNA:   3'- -UCCgc--GCGGUCGAGC-------CGCUGUUAUGG- -5'
7148 5' -57.6 NC_001895.1 + 5670 0.67 0.38238
Target:  5'- cAGGCaUGUCAGCcgUGGCGGCAGU-UCa -3'
miRNA:   3'- -UCCGcGCGGUCGa-GCCGCUGUUAuGG- -5'
7148 5' -57.6 NC_001895.1 + 4034 0.67 0.38238
Target:  5'- aGGGCGUcaccGCCAccGC-CGGUGGCuuUGCUg -3'
miRNA:   3'- -UCCGCG----CGGU--CGaGCCGCUGuuAUGG- -5'
7148 5' -57.6 NC_001895.1 + 19659 0.67 0.373353
Target:  5'- cAGGCaGUuCCAGCgCGGCGACuu--CCu -3'
miRNA:   3'- -UCCG-CGcGGUCGaGCCGCUGuuauGG- -5'
7148 5' -57.6 NC_001895.1 + 6368 0.67 0.364472
Target:  5'- cGGUGUggauGCCAGUgcgaaaGGCGACAAgaagGCUg -3'
miRNA:   3'- uCCGCG----CGGUCGag----CCGCUGUUa---UGG- -5'
7148 5' -57.6 NC_001895.1 + 4782 0.68 0.347152
Target:  5'- uGGgGCGUCAGCUacUGGCgGACAAguauuuCCc -3'
miRNA:   3'- uCCgCGCGGUCGA--GCCG-CUGUUau----GG- -5'
7148 5' -57.6 NC_001895.1 + 21348 0.68 0.347152
Target:  5'- aAGGCGCGCUgcguaAGCUCacGCaGACG--GCCa -3'
miRNA:   3'- -UCCGCGCGG-----UCGAGc-CG-CUGUuaUGG- -5'
7148 5' -57.6 NC_001895.1 + 10431 0.68 0.33788
Target:  5'- cGGCaGCGaCCGGCguuaaggucgguuUCGaCGAUAAUGCCa -3'
miRNA:   3'- uCCG-CGC-GGUCG-------------AGCcGCUGUUAUGG- -5'
7148 5' -57.6 NC_001895.1 + 29799 0.68 0.314307
Target:  5'- -cGCGCGCCgAGaugCGGCGcguaAAUGCCg -3'
miRNA:   3'- ucCGCGCGG-UCga-GCCGCug--UUAUGG- -5'
7148 5' -57.6 NC_001895.1 + 20593 0.69 0.289021
Target:  5'- uGGCGCGCCugcuugcggagugcGGCcauuUCGGCGGagucuuuUGCCa -3'
miRNA:   3'- uCCGCGCGG--------------UCG----AGCCGCUguu----AUGG- -5'
7148 5' -57.6 NC_001895.1 + 3598 0.69 0.269543
Target:  5'- gAGGCuuGCCGGgucaUCGGUGACG--GCCa -3'
miRNA:   3'- -UCCGcgCGGUCg---AGCCGCUGUuaUGG- -5'
7148 5' -57.6 NC_001895.1 + 9279 0.7 0.236285
Target:  5'- cGGCGCGUCcccuGCUCGGCuu---UACCg -3'
miRNA:   3'- uCCGCGCGGu---CGAGCCGcuguuAUGG- -5'
7148 5' -57.6 NC_001895.1 + 6709 0.71 0.200442
Target:  5'- cGGGCGCggucugaacgucgGgCAGUUCGaCGGCGGUGCCg -3'
miRNA:   3'- -UCCGCG-------------CgGUCGAGCcGCUGUUAUGG- -5'
7148 5' -57.6 NC_001895.1 + 8898 0.72 0.185122
Target:  5'- cGGGCGgGugaCCGGCUcCGGCGGCGGggguuCCg -3'
miRNA:   3'- -UCCGCgC---GGUCGA-GCCGCUGUUau---GG- -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.