miRNA display CGI


Results 1 - 20 of 26 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
28564 5' -62.1 NC_005946.1 + 102049 0.67 0.50915
Target:  5'- gGCCCCuGGuCUUGACGaGCCUCucgGAGACGg -3'
miRNA:   3'- -UGGGG-UC-GGACUGCcUGGGG---CUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 100886 0.72 0.270008
Target:  5'- --gCCGGUCUGACGGcuGCCaUCGAGACGg -3'
miRNA:   3'- uggGGUCGGACUGCC--UGG-GGCUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 95362 0.67 0.518686
Target:  5'- gGCCCaggGGCUUcGGgGGAggcagguuccCCCCGAGGCGa -3'
miRNA:   3'- -UGGGg--UCGGA-CUgCCU----------GGGGCUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 94806 0.7 0.361219
Target:  5'- aACCCCAGgCUGAauauaCCCGAGACu -3'
miRNA:   3'- -UGGGGUCgGACUgccugGGGCUCUGc -5'
28564 5' -62.1 NC_005946.1 + 74135 0.67 0.490307
Target:  5'- aGCCCCcguGCCcaGACGGcaaACCCUGGGAg- -3'
miRNA:   3'- -UGGGGu--CGGa-CUGCC---UGGGGCUCUgc -5'
28564 5' -62.1 NC_005946.1 + 72200 0.66 0.577192
Target:  5'- uACCCCcaaaagAGCCUGGUGGACUCUagguccguaaaGAGGCu -3'
miRNA:   3'- -UGGGG------UCGGACUGCCUGGGG-----------CUCUGc -5'
28564 5' -62.1 NC_005946.1 + 67604 0.74 0.179369
Target:  5'- uCCCCAGCCUGAUccacccgcaagugGGAagguCCCUGAGGCu -3'
miRNA:   3'- uGGGGUCGGACUG-------------CCU----GGGGCUCUGc -5'
28564 5' -62.1 NC_005946.1 + 64137 0.73 0.213203
Target:  5'- gACCCgAGCUUGggcACGGACCCCGA-ACa -3'
miRNA:   3'- -UGGGgUCGGAC---UGCCUGGGGCUcUGc -5'
28564 5' -62.1 NC_005946.1 + 59667 0.72 0.263819
Target:  5'- aGCCCUcuauCUUGACGGGCCUgGGGACGu -3'
miRNA:   3'- -UGGGGuc--GGACUGCCUGGGgCUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 49439 0.66 0.577192
Target:  5'- aACCCCuccagGGCCcuggagggGACGGGguCCUCGuAGACGg -3'
miRNA:   3'- -UGGGG-----UCGGa-------CUGCCU--GGGGC-UCUGC- -5'
28564 5' -62.1 NC_005946.1 + 47606 0.68 0.434122
Target:  5'- cACCCUGGCCgcaaaguccuccGGCGGAacgugccuggaaCCCUGAGGCa -3'
miRNA:   3'- -UGGGGUCGGa-----------CUGCCU------------GGGGCUCUGc -5'
28564 5' -62.1 NC_005946.1 + 47410 0.71 0.289279
Target:  5'- uGCgCCGGCCacucuggGGCGGgcuugaACCCCGGGAUGg -3'
miRNA:   3'- -UGgGGUCGGa------CUGCC------UGGGGCUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 42876 0.68 0.44471
Target:  5'- cAUCCCAGCCUGGacacCGGGa-UCGAGugGa -3'
miRNA:   3'- -UGGGGUCGGACU----GCCUggGGCUCugC- -5'
28564 5' -62.1 NC_005946.1 + 42360 0.66 0.537962
Target:  5'- gACCCUuugGGCCgu-CGGGCCCCGcGuCGu -3'
miRNA:   3'- -UGGGG---UCGGacuGCCUGGGGCuCuGC- -5'
28564 5' -62.1 NC_005946.1 + 42300 0.68 0.462671
Target:  5'- gACCCCuggGGCCcuuugGACccucaGGACCCgCGGGACc -3'
miRNA:   3'- -UGGGG---UCGGa----CUG-----CCUGGG-GCUCUGc -5'
28564 5' -62.1 NC_005946.1 + 36682 0.66 0.577192
Target:  5'- aGCCUCucuCCUGACGGGCCUgGgcucGGACu -3'
miRNA:   3'- -UGGGGuc-GGACUGCCUGGGgC----UCUGc -5'
28564 5' -62.1 NC_005946.1 + 35134 0.77 0.111512
Target:  5'- cACUCaAGCCUGACGGACCUCaGGACGu -3'
miRNA:   3'- -UGGGgUCGGACUGCCUGGGGcUCUGC- -5'
28564 5' -62.1 NC_005946.1 + 27437 0.66 0.547693
Target:  5'- cGCCCuCGGCCgaGAUGaGGCuCCUGAGGuCGg -3'
miRNA:   3'- -UGGG-GUCGGa-CUGC-CUG-GGGCUCU-GC- -5'
28564 5' -62.1 NC_005946.1 + 26984 0.68 0.435876
Target:  5'- cACCCUcuuuAGCCUGugGG-CCuuGGuGGCGu -3'
miRNA:   3'- -UGGGG----UCGGACugCCuGGggCU-CUGC- -5'
28564 5' -62.1 NC_005946.1 + 26766 0.69 0.385098
Target:  5'- uACCCCAGCUaGGgGGAgucucgacguCCCCGaAGGCa -3'
miRNA:   3'- -UGGGGUCGGaCUgCCU----------GGGGC-UCUGc -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.