miRNA display CGI


Results 1 - 20 of 40 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
23825 5' -51.8 NC_005261.1 + 844 1.06 0.008352
Target:  5'- aACCCCCCAAAAAAGGACGAGGAAGAAg -3'
miRNA:   3'- -UGGGGGGUUUUUUCCUGCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 35351 0.78 0.439466
Target:  5'- aGCCCgCCGGAGAAGGACaGAGGuAGAu -3'
miRNA:   3'- -UGGGgGGUUUUUUCCUG-CUCCuUCUu -5'
23825 5' -51.8 NC_005261.1 + 33119 0.77 0.478262
Target:  5'- cGCCCUCCGcgaacaGAGGGGGAgGGGGGAGGAg -3'
miRNA:   3'- -UGGGGGGU------UUUUUCCUgCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 11692 0.77 0.507414
Target:  5'- aACCCCgCCGGAGAgaaaccggaagugGGGGCGAgGGAAGAGa -3'
miRNA:   3'- -UGGGG-GGUUUUU-------------UCCUGCU-CCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 117754 0.77 0.512518
Target:  5'- cGCCCCcaacgcgacucggguCCGGAucGGGGCGGGGAGGAGg -3'
miRNA:   3'- -UGGGG---------------GGUUUuuUCCUGCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 98661 0.76 0.569878
Target:  5'- gGCCCCCCAGGcGAGGGCGGGcuccgccggggccGGAGGc -3'
miRNA:   3'- -UGGGGGGUUUuUUCCUGCUC-------------CUUCUu -5'
23825 5' -51.8 NC_005261.1 + 30424 0.74 0.645863
Target:  5'- cACCgcgggcggaCCUGGAGGAGGACGGGGAGGAc -3'
miRNA:   3'- -UGGg--------GGGUUUUUUCCUGCUCCUUCUu -5'
23825 5' -51.8 NC_005261.1 + 28517 0.74 0.688606
Target:  5'- gACCUcggCCCGGAGGGGGGCccgGAGGAGGAc -3'
miRNA:   3'- -UGGG---GGGUUUUUUCCUG---CUCCUUCUu -5'
23825 5' -51.8 NC_005261.1 + 74915 0.73 0.699188
Target:  5'- gGCCgCgCGGGGGAGGGCGAGGAcgGGGAc -3'
miRNA:   3'- -UGGgGgGUUUUUUCCUGCUCCU--UCUU- -5'
23825 5' -51.8 NC_005261.1 + 5713 0.73 0.740789
Target:  5'- gGCCCCCUuucgcGGAGAGGcCGGcGGGAGAAg -3'
miRNA:   3'- -UGGGGGGu----UUUUUCCuGCU-CCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 8827 0.72 0.761006
Target:  5'- cGCCCgCCGGgcAAGGGGGCGGGGAcAGGc -3'
miRNA:   3'- -UGGGgGGUU--UUUUCCUGCUCCU-UCUu -5'
23825 5' -51.8 NC_005261.1 + 121688 0.72 0.777798
Target:  5'- cGCCCUCCAGGuugcgcauGGAGGcguagacgccgacgGCGGGGGAGAAg -3'
miRNA:   3'- -UGGGGGGUUU--------UUUCC--------------UGCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 37309 0.72 0.780719
Target:  5'- cGCCCCCCGcacGAGGACGcGGuccuGGAGc -3'
miRNA:   3'- -UGGGGGGUuuuUUCCUGCuCCu---UCUU- -5'
23825 5' -51.8 NC_005261.1 + 48016 0.72 0.799845
Target:  5'- cGCCCCgCCGgcAGAGcAGGGCGAGGAGc-- -3'
miRNA:   3'- -UGGGG-GGU--UUUU-UCCUGCUCCUUcuu -5'
23825 5' -51.8 NC_005261.1 + 7117 0.71 0.806386
Target:  5'- cGCUCUCUuaacagccagaggaGAAGGAGGAgGAGGAGGAAg -3'
miRNA:   3'- -UGGGGGG--------------UUUUUUCCUgCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 28006 0.71 0.818303
Target:  5'- uCUCCgCGAAAGGGGgccgGCGGGGAGGAGa -3'
miRNA:   3'- uGGGGgGUUUUUUCC----UGCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 90125 0.71 0.827258
Target:  5'- gGCCCgCgGc--GAGGGCGAGGAGGGGg -3'
miRNA:   3'- -UGGGgGgUuuuUUCCUGCUCCUUCUU- -5'
23825 5' -51.8 NC_005261.1 + 12417 0.71 0.827258
Target:  5'- aGCCCUCCA----GGGGCGGcGGAGGGc -3'
miRNA:   3'- -UGGGGGGUuuuuUCCUGCU-CCUUCUu -5'
23825 5' -51.8 NC_005261.1 + 46757 0.71 0.836017
Target:  5'- aGCCCgCCGAAGAAGGucaggaGCGAGGGcuuGAGc -3'
miRNA:   3'- -UGGGgGGUUUUUUCC------UGCUCCUu--CUU- -5'
23825 5' -51.8 NC_005261.1 + 30494 0.71 0.844571
Target:  5'- gGCCUCggaaaCCAgcGAGGGGGAgGAGGAGGAGg -3'
miRNA:   3'- -UGGGG-----GGU--UUUUUCCUgCUCCUUCUU- -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.