miRNA display CGI


Results 1 - 20 of 41 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
29254 5' -56.3 NC_006150.1 + 202829 0.66 0.945887
Target:  5'- gGGAUggGUGgaGGCGGAGGcgcuugaagcgcGGGagcUGGCa -3'
miRNA:   3'- -CUUGuuCACggUCGCCUCC------------UCC---ACCG- -5'
29254 5' -56.3 NC_006150.1 + 126474 0.66 0.945887
Target:  5'- -cGCuguGUGCgAGCGGAGGuGaaccuUGGCg -3'
miRNA:   3'- cuUGuu-CACGgUCGCCUCCuCc----ACCG- -5'
29254 5' -56.3 NC_006150.1 + 160231 0.66 0.945887
Target:  5'- aAugAAGUcCCGGUGGGGGAGGcUGa- -3'
miRNA:   3'- cUugUUCAcGGUCGCCUCCUCC-ACcg -5'
29254 5' -56.3 NC_006150.1 + 7218 0.66 0.945887
Target:  5'- aGAAUuauaAGGUGUUAugcuugauaaguGgGGGGGGGGUGGUg -3'
miRNA:   3'- -CUUG----UUCACGGU------------CgCCUCCUCCACCG- -5'
29254 5' -56.3 NC_006150.1 + 201754 0.66 0.941467
Target:  5'- aAACGAG-GCuCGGUGGuGGAGaagGGCg -3'
miRNA:   3'- cUUGUUCaCG-GUCGCCuCCUCca-CCG- -5'
29254 5' -56.3 NC_006150.1 + 148300 0.66 0.936819
Target:  5'- -uGCGGGUGUC--UGGGGGAGGUGa- -3'
miRNA:   3'- cuUGUUCACGGucGCCUCCUCCACcg -5'
29254 5' -56.3 NC_006150.1 + 132555 0.66 0.931942
Target:  5'- gGGugGcccAGUGCCaagAGCGaGAGGAGcUGGUg -3'
miRNA:   3'- -CUugU---UCACGG---UCGC-CUCCUCcACCG- -5'
29254 5' -56.3 NC_006150.1 + 58835 0.66 0.926836
Target:  5'- gGAACAccGGcGCCGGCGGGcucGAGGcGGUc -3'
miRNA:   3'- -CUUGU--UCaCGGUCGCCUc--CUCCaCCG- -5'
29254 5' -56.3 NC_006150.1 + 94238 0.67 0.915933
Target:  5'- uGGGCGAGggaGCCGGUGGcguAGGuGuUGGCg -3'
miRNA:   3'- -CUUGUUCa--CGGUCGCC---UCCuCcACCG- -5'
29254 5' -56.3 NC_006150.1 + 188389 0.67 0.915933
Target:  5'- aGGCAGGUGaaaagaAGCGcucGAGGcAGGUGGUa -3'
miRNA:   3'- cUUGUUCACgg----UCGC---CUCC-UCCACCG- -5'
29254 5' -56.3 NC_006150.1 + 124060 0.67 0.910137
Target:  5'- cGAACGGG-GCauuguugaGGCGGgugAGGAagcaGGUGGCg -3'
miRNA:   3'- -CUUGUUCaCGg-------UCGCC---UCCU----CCACCG- -5'
29254 5' -56.3 NC_006150.1 + 220928 0.67 0.910137
Target:  5'- gGGGCuGGUGCggagaccugcgUAGCGGAgaugcugccaGGAGuGUGGCg -3'
miRNA:   3'- -CUUGuUCACG-----------GUCGCCU----------CCUC-CACCG- -5'
29254 5' -56.3 NC_006150.1 + 150247 0.67 0.910137
Target:  5'- uGACGGGagcGCCAGCGG----GGUGGCg -3'
miRNA:   3'- cUUGUUCa--CGGUCGCCuccuCCACCG- -5'
29254 5' -56.3 NC_006150.1 + 220875 0.67 0.904115
Target:  5'- uGAugAGGgcGCCAGUgaguuGGAGGAGcaGGCa -3'
miRNA:   3'- -CUugUUCa-CGGUCG-----CCUCCUCcaCCG- -5'
29254 5' -56.3 NC_006150.1 + 54393 0.67 0.901643
Target:  5'- aGGugAAGauccauccccuggGCCAGCGGAuaGGAaaGGUGGUc -3'
miRNA:   3'- -CUugUUCa------------CGGUCGCCU--CCU--CCACCG- -5'
29254 5' -56.3 NC_006150.1 + 180466 0.67 0.897868
Target:  5'- -----cGUGCgAcGCGGGGGAaugcggcgcGGUGGCg -3'
miRNA:   3'- cuuguuCACGgU-CGCCUCCU---------CCACCG- -5'
29254 5' -56.3 NC_006150.1 + 88369 0.67 0.897868
Target:  5'- gGGugGGGuUGUCgaGGgGGAGGGGGcGGCg -3'
miRNA:   3'- -CUugUUC-ACGG--UCgCCUCCUCCaCCG- -5'
29254 5' -56.3 NC_006150.1 + 75955 0.67 0.891398
Target:  5'- aGAGCGAuGUGCUcacGGUGGAgcuGGAGaGUGGg -3'
miRNA:   3'- -CUUGUU-CACGG---UCGCCU---CCUC-CACCg -5'
29254 5' -56.3 NC_006150.1 + 142122 0.68 0.884709
Target:  5'- -cACGGGUaGCgguaAGCGGGGGcGGUGGg -3'
miRNA:   3'- cuUGUUCA-CGg---UCGCCUCCuCCACCg -5'
29254 5' -56.3 NC_006150.1 + 13239 0.68 0.87069
Target:  5'- uAAC-GGUGCCaAGUGGAGGcGGcGGUg -3'
miRNA:   3'- cUUGuUCACGG-UCGCCUCCuCCaCCG- -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.