miRNA display CGI


Results 1 - 20 of 96 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
16199 3' -56.2 NC_004065.1 + 4412 0.67 0.923191
Target:  5'- aGCGGUGGcCACGG-CgggCCUGACg- -3'
miRNA:   3'- cCGCCGCCuGUGCUaGaa-GGACUGgu -5'
16199 3' -56.2 NC_004065.1 + 4689 0.69 0.880787
Target:  5'- cGGCGGCGGACacuaACGAUCcgggaUGGCg- -3'
miRNA:   3'- -CCGCCGCCUG----UGCUAGaagg-ACUGgu -5'
16199 3' -56.2 NC_004065.1 + 5705 0.66 0.954811
Target:  5'- cGUGGCGGGacuCGGga-UCCUGGCCc -3'
miRNA:   3'- cCGCCGCCUgu-GCUagaAGGACUGGu -5'
16199 3' -56.2 NC_004065.1 + 6509 0.7 0.803321
Target:  5'- cGCGGCcGGCACuaGAUCc-CCUGACCGg -3'
miRNA:   3'- cCGCCGcCUGUG--CUAGaaGGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 8325 0.69 0.851969
Target:  5'- cGGUaGCGGugACGAUCUUuauagugacUCUGAUCGc -3'
miRNA:   3'- -CCGcCGCCugUGCUAGAA---------GGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 8761 0.7 0.794666
Target:  5'- uGGCGGCGG-CAgGGUUcauaUCCUGGCa- -3'
miRNA:   3'- -CCGCCGCCuGUgCUAGa---AGGACUGgu -5'
16199 3' -56.2 NC_004065.1 + 16610 0.67 0.938063
Target:  5'- cGCuGCGGACGCGAUCU-CUUcGGCg- -3'
miRNA:   3'- cCGcCGCCUGUGCUAGAaGGA-CUGgu -5'
16199 3' -56.2 NC_004065.1 + 28745 0.76 0.516595
Target:  5'- cGGUGGCGGACGC---CUUCCUGcGCCu -3'
miRNA:   3'- -CCGCCGCCUGUGcuaGAAGGAC-UGGu -5'
16199 3' -56.2 NC_004065.1 + 28995 0.7 0.811832
Target:  5'- cGGCGGCGGugGCGAggcgccgcgcgcacgCggCCUcgagucaGACCGg -3'
miRNA:   3'- -CCGCCGCCugUGCUa--------------GaaGGA-------CUGGU- -5'
16199 3' -56.2 NC_004065.1 + 29603 0.67 0.933328
Target:  5'- cGCGGUccugcaGGACuucGCGGacaUCUUCCUGGCgCAg -3'
miRNA:   3'- cCGCCG------CCUG---UGCU---AGAAGGACUG-GU- -5'
16199 3' -56.2 NC_004065.1 + 29715 0.69 0.847381
Target:  5'- aGCGGCGGACGCcgcccaggacgaugaGAUCcUCCgGACa- -3'
miRNA:   3'- cCGCCGCCUGUG---------------CUAGaAGGaCUGgu -5'
16199 3' -56.2 NC_004065.1 + 32972 0.66 0.950948
Target:  5'- cGCGGCGGAgCAUGA-CggaggCCUcgcgGACCAg -3'
miRNA:   3'- cCGCCGCCU-GUGCUaGaa---GGA----CUGGU- -5'
16199 3' -56.2 NC_004065.1 + 37873 0.69 0.844287
Target:  5'- cGGCGGUGaucGGCACGAUgUUCCgcACCu -3'
miRNA:   3'- -CCGCCGC---CUGUGCUAgAAGGacUGGu -5'
16199 3' -56.2 NC_004065.1 + 38336 0.66 0.961905
Target:  5'- gGGUGGUGGGCugGGUCaaaugUUCgGGCg- -3'
miRNA:   3'- -CCGCCGCCUGugCUAGa----AGGaCUGgu -5'
16199 3' -56.2 NC_004065.1 + 40640 0.72 0.7439
Target:  5'- cGGCGaCGGugacgccgaacgGCACGAUCUUgcuucacgacaacuaCCUGACCAc -3'
miRNA:   3'- -CCGCcGCC------------UGUGCUAGAA---------------GGACUGGU- -5'
16199 3' -56.2 NC_004065.1 + 42238 0.72 0.711593
Target:  5'- cGGCGGgGGGCGCGAUagggggugUCUGAUCu -3'
miRNA:   3'- -CCGCCgCCUGUGCUAgaa-----GGACUGGu -5'
16199 3' -56.2 NC_004065.1 + 48107 0.68 0.89398
Target:  5'- cGGCGGCGGugGCGGcggCgguggGACCu -3'
miRNA:   3'- -CCGCCGCCugUGCUa--GaaggaCUGGu -5'
16199 3' -56.2 NC_004065.1 + 54522 0.68 0.900259
Target:  5'- -uCGGCGGACGCGuUCUgucuaCUGACg- -3'
miRNA:   3'- ccGCCGCCUGUGCuAGAag---GACUGgu -5'
16199 3' -56.2 NC_004065.1 + 56514 0.67 0.938063
Target:  5'- cGGCGaCGGACGCGAgauuUCUUCagagUGGCg- -3'
miRNA:   3'- -CCGCcGCCUGUGCU----AGAAGg---ACUGgu -5'
16199 3' -56.2 NC_004065.1 + 61718 0.68 0.89398
Target:  5'- aGCGGCGGAUGCGAgccaugcgCUcCUUGGCgGg -3'
miRNA:   3'- cCGCCGCCUGUGCUa-------GAaGGACUGgU- -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.