miRNA display CGI


Results 1 - 20 of 58 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
25733 3' -55.1 NC_005337.1 + 11849 0.66 0.926374
Target:  5'- -gAUGUUGGAGAuGGAGCCGc-CCGugaGCg -3'
miRNA:   3'- cgUGCGACCUCU-CCUUGGCaaGGC---UG- -5'
25733 3' -55.1 NC_005337.1 + 115383 0.67 0.882733
Target:  5'- aGCACGCaccUGGaAGAGGuGCCcUUCugCGACg -3'
miRNA:   3'- -CGUGCG---ACC-UCUCCuUGGcAAG--GCUG- -5'
25733 3' -55.1 NC_005337.1 + 87752 0.67 0.889676
Target:  5'- --uCGCUGGGcuccucGaAGGAGCCGaacUCCGGCg -3'
miRNA:   3'- cguGCGACCU------C-UCCUUGGCa--AGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 2234 0.67 0.889676
Target:  5'- cCGCGCcguagaggaccuUGGAGAGGAacucgcggaagGCCGUgUCCGuCc -3'
miRNA:   3'- cGUGCG------------ACCUCUCCU-----------UGGCA-AGGCuG- -5'
25733 3' -55.1 NC_005337.1 + 52533 0.67 0.896387
Target:  5'- gGCAUGCUGGAcGGGAGCgucauCGUguacaUCGGCu -3'
miRNA:   3'- -CGUGCGACCUcUCCUUG-----GCAa----GGCUG- -5'
25733 3' -55.1 NC_005337.1 + 60226 0.66 0.909104
Target:  5'- gGCGCgggggcugggGCUGGGGucGGAGCCGgagUCgGAg -3'
miRNA:   3'- -CGUG----------CGACCUCu-CCUUGGCa--AGgCUg -5'
25733 3' -55.1 NC_005337.1 + 82575 0.66 0.909104
Target:  5'- gGCGCGCUGGAucuccauggaGAcGGuguCCGUcacgcCCGGCa -3'
miRNA:   3'- -CGUGCGACCU----------CU-CCuu-GGCAa----GGCUG- -5'
25733 3' -55.1 NC_005337.1 + 104136 0.66 0.909104
Target:  5'- cGCGCGCgUGGAGcgcgugcaGGcGGACCucaCCGACa -3'
miRNA:   3'- -CGUGCG-ACCUC--------UC-CUUGGcaaGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 108599 0.66 0.92086
Target:  5'- --uCGCUGGAG-GGAGCa---CCGGCg -3'
miRNA:   3'- cguGCGACCUCuCCUUGgcaaGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 24599 0.67 0.882733
Target:  5'- aCAUGCUGGAcGAGGAGauggaCGUguaCCGGu -3'
miRNA:   3'- cGUGCGACCU-CUCCUUg----GCAa--GGCUg -5'
25733 3' -55.1 NC_005337.1 + 129295 0.67 0.868174
Target:  5'- gGCaAUGCUGGuguGGGGcGCgCGcUCCGGCa -3'
miRNA:   3'- -CG-UGCGACCu--CUCCuUG-GCaAGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 132463 0.68 0.852751
Target:  5'- aGCGCGCUGacaaAGAGGGuucCCGUg-CGGCg -3'
miRNA:   3'- -CGUGCGACc---UCUCCUu--GGCAagGCUG- -5'
25733 3' -55.1 NC_005337.1 + 89877 0.73 0.582217
Target:  5'- cGCGCGCUGGcGAuGGAgagcgcGCUGUUCaCGAUg -3'
miRNA:   3'- -CGUGCGACCuCU-CCU------UGGCAAG-GCUG- -5'
25733 3' -55.1 NC_005337.1 + 45952 0.73 0.596582
Target:  5'- aGCGCGCcGGAGcgcacgggcauuuccAGGAGCCGcUCCGcCu -3'
miRNA:   3'- -CGUGCGaCCUC---------------UCCUUGGCaAGGCuG- -5'
25733 3' -55.1 NC_005337.1 + 11099 0.71 0.664651
Target:  5'- cGCA-GCUGGAGAGGuACCGggugauuggccUUCCGuGCu -3'
miRNA:   3'- -CGUgCGACCUCUCCuUGGC-----------AAGGC-UG- -5'
25733 3' -55.1 NC_005337.1 + 117263 0.71 0.664651
Target:  5'- uGCGCGCUGGAcgucGAGGccCCGc-CCGAUa -3'
miRNA:   3'- -CGUGCGACCU----CUCCuuGGCaaGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 67546 0.69 0.792753
Target:  5'- aCGCGCUGGAGGagauGGACCGcaCgGACg -3'
miRNA:   3'- cGUGCGACCUCUc---CUUGGCaaGgCUG- -5'
25733 3' -55.1 NC_005337.1 + 52029 0.68 0.835683
Target:  5'- cGCGCGCggucaUGGAGuuccgggaccugcGGGAGCUGgUUCGGCu -3'
miRNA:   3'- -CGUGCG-----ACCUC-------------UCCUUGGCaAGGCUG- -5'
25733 3' -55.1 NC_005337.1 + 50898 0.68 0.836515
Target:  5'- gGCGCcggaaccugggGCUgGGAGAGGAACCGg--UGACc -3'
miRNA:   3'- -CGUG-----------CGA-CCUCUCCUUGGCaagGCUG- -5'
25733 3' -55.1 NC_005337.1 + 100022 0.68 0.851958
Target:  5'- gGCGCggaccguGCUGGAGGugcucgacGGGACCGUgcgcguggUCGACg -3'
miRNA:   3'- -CGUG-------CGACCUCU--------CCUUGGCAa-------GGCUG- -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.