miRNA display CGI


Results 1 - 19 of 19 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
23824 5' -56.3 NC_005261.1 + 74851 0.66 0.896654
Target:  5'- --gGAGGCGGCGCgccgGGcgGAG-GAg -3'
miRNA:   3'- aggCUCCGCUGCGaca-CCuaCUCuCU- -5'
23824 5' -56.3 NC_005261.1 + 35249 0.66 0.890003
Target:  5'- --aGAGGCGGCG----GGAUGGGAGGc -3'
miRNA:   3'- aggCUCCGCUGCgacaCCUACUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 33828 0.66 0.889325
Target:  5'- gCCGGGGggcgcgggcccccUGGCGCUGggcgGGccGGGAGGg -3'
miRNA:   3'- aGGCUCC-------------GCUGCGACa---CCuaCUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 62741 0.66 0.868703
Target:  5'- uUCUGgaGGGCGGCcaggucGCUGUGG--GAGAGGu -3'
miRNA:   3'- -AGGC--UCCGCUG------CGACACCuaCUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 77196 0.66 0.86117
Target:  5'- aUCUGcAGGCGAgcgcgguguuccCGCUGgccGGggGGGAGGa -3'
miRNA:   3'- -AGGC-UCCGCU------------GCGACa--CCuaCUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 14369 0.66 0.86117
Target:  5'- gCCGGGGCGGCGCgGUGGc------- -3'
miRNA:   3'- aGGCUCCGCUGCGaCACCuacucucu -5'
23824 5' -56.3 NC_005261.1 + 68586 0.67 0.848689
Target:  5'- gCCGAGGCGGgcCGCg--GGAgcggggccgacggcgUGGGGGAg -3'
miRNA:   3'- aGGCUCCGCU--GCGacaCCU---------------ACUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 23624 0.67 0.836529
Target:  5'- gCCGGGGCGcggcgggggucggGCgGCUGgaagGGAgagGGGAGGa -3'
miRNA:   3'- aGGCUCCGC-------------UG-CGACa---CCUa--CUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 73154 0.68 0.811853
Target:  5'- gCCGccAGGCGGCGUUGUugcucggccgGGggGAGGGu -3'
miRNA:   3'- aGGC--UCCGCUGCGACA----------CCuaCUCUCu -5'
23824 5' -56.3 NC_005261.1 + 13702 0.68 0.811853
Target:  5'- -gCGGGGCGG-GCUGggggcggGGGUGGGGGu -3'
miRNA:   3'- agGCUCCGCUgCGACa------CCUACUCUCu -5'
23824 5' -56.3 NC_005261.1 + 24121 0.68 0.803015
Target:  5'- cCCGAGGCGGgGgUGggggcUGGGUGGGcGGGg -3'
miRNA:   3'- aGGCUCCGCUgCgAC-----ACCUACUC-UCU- -5'
23824 5' -56.3 NC_005261.1 + 50991 0.68 0.794022
Target:  5'- gCCGAcGGCGGCGC-GUGGGcgcggcGGGAGc -3'
miRNA:   3'- aGGCU-CCGCUGCGaCACCUa-----CUCUCu -5'
23824 5' -56.3 NC_005261.1 + 30377 0.68 0.775605
Target:  5'- gCCGGGcgccGCGGCGCggGUGGAgguGGAGGa -3'
miRNA:   3'- aGGCUC----CGCUGCGa-CACCUac-UCUCU- -5'
23824 5' -56.3 NC_005261.1 + 137115 0.69 0.747038
Target:  5'- cCCGcgcGGCGGCGUuuUGUGGAaggagcGAGGGAg -3'
miRNA:   3'- aGGCu--CCGCUGCG--ACACCUa-----CUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 70181 0.69 0.747038
Target:  5'- -gCGGGaGCGGcCGCUGUGGAggcGGGGGu -3'
miRNA:   3'- agGCUC-CGCU-GCGACACCUa--CUCUCu -5'
23824 5' -56.3 NC_005261.1 + 43777 0.69 0.737301
Target:  5'- -gUGGGGCGGCGCgcggagGgcgccgcGGGUGAGGGGg -3'
miRNA:   3'- agGCUCCGCUGCGa-----Ca------CCUACUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 22081 0.7 0.667087
Target:  5'- cUCGAGGgGGCGCcgcGUGGGggcGGGAGGg -3'
miRNA:   3'- aGGCUCCgCUGCGa--CACCUa--CUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 7979 0.75 0.38753
Target:  5'- gCCGAGGCGGCcCgGUGGGaGAGGGGg -3'
miRNA:   3'- aGGCUCCGCUGcGaCACCUaCUCUCU- -5'
23824 5' -56.3 NC_005261.1 + 37375 0.79 0.238976
Target:  5'- cCCGAGGCGGCGCUGUGGuacgcGGAc -3'
miRNA:   3'- aGGCUCCGCUGCGACACCuacucUCU- -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.