miRNA display CGI


Results 1 - 20 of 25 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
27668 3' -57 NC_005882.1 + 22152 0.66 0.512752
Target:  5'- -cUGACCGCCGcgagcuuuuugcaGUcCGGCGGGCGGa -3'
miRNA:   3'- uuGCUGGCGGCua-----------CA-GCCGCUCGUUc -5'
27668 3' -57 NC_005882.1 + 27616 0.66 0.476889
Target:  5'- cGGCGACCGCCGAcgagcgcccgaUGccgauugCGGCGcccugGGCGAu -3'
miRNA:   3'- -UUGCUGGCGGCU-----------ACa------GCCGC-----UCGUUc -5'
27668 3' -57 NC_005882.1 + 20443 0.66 0.476889
Target:  5'- cGCGGCCGgcagCGAUccgGUCGGCGucaucgaagacGGCAAGg -3'
miRNA:   3'- uUGCUGGCg---GCUA---CAGCCGC-----------UCGUUC- -5'
27668 3' -57 NC_005882.1 + 30870 0.66 0.475853
Target:  5'- -cCGGCUGCCagugaacggagguGAUGUCGGaGAGCuGGg -3'
miRNA:   3'- uuGCUGGCGG-------------CUACAGCCgCUCGuUC- -5'
27668 3' -57 NC_005882.1 + 13779 0.66 0.466577
Target:  5'- -cCGGCCGCgCGAUGccCGGCucGCAAu -3'
miRNA:   3'- uuGCUGGCG-GCUACa-GCCGcuCGUUc -5'
27668 3' -57 NC_005882.1 + 20147 0.67 0.454357
Target:  5'- cGACGACCggcaucaggcucugGCCGAUGaauUCGGCGuucguguaaccgaucGCGAGa -3'
miRNA:   3'- -UUGCUGG--------------CGGCUAC---AGCCGCu--------------CGUUC- -5'
27668 3' -57 NC_005882.1 + 23451 0.67 0.445307
Target:  5'- gAGCGGCCGC---UGUCGGCGAugaucgacgauccGCAAu -3'
miRNA:   3'- -UUGCUGGCGgcuACAGCCGCU-------------CGUUc -5'
27668 3' -57 NC_005882.1 + 14209 0.67 0.436359
Target:  5'- aAGCGGCCGCCGcgGcCGuCGA-CAAGg -3'
miRNA:   3'- -UUGCUGGCGGCuaCaGCcGCUcGUUC- -5'
27668 3' -57 NC_005882.1 + 31013 0.67 0.426539
Target:  5'- cGCGAuCCGCCGGUGggagCcGCGcuGCGAGg -3'
miRNA:   3'- uUGCU-GGCGGCUACa---GcCGCu-CGUUC- -5'
27668 3' -57 NC_005882.1 + 16075 0.67 0.426539
Target:  5'- cACGGCCGCCu-UG-CGGCGGcGCAc- -3'
miRNA:   3'- uUGCUGGCGGcuACaGCCGCU-CGUuc -5'
27668 3' -57 NC_005882.1 + 21589 0.67 0.426539
Target:  5'- uGAUGACCGUCGGaacCGGCGAcagcgGCAGGu -3'
miRNA:   3'- -UUGCUGGCGGCUacaGCCGCU-----CGUUC- -5'
27668 3' -57 NC_005882.1 + 12246 0.67 0.416851
Target:  5'- cACGGCgGCCGGUGcauGCGAGCGc- -3'
miRNA:   3'- uUGCUGgCGGCUACagcCGCUCGUuc -5'
27668 3' -57 NC_005882.1 + 4977 0.68 0.397885
Target:  5'- aGACGGCCGCCGAaggcagugccuUGcCcuuGCGAGCGGc -3'
miRNA:   3'- -UUGCUGGCGGCU-----------ACaGc--CGCUCGUUc -5'
27668 3' -57 NC_005882.1 + 3269 0.68 0.361658
Target:  5'- -uCGGCCgGCCGccGUCGcGCG-GCGAGa -3'
miRNA:   3'- uuGCUGG-CGGCuaCAGC-CGCuCGUUC- -5'
27668 3' -57 NC_005882.1 + 19763 0.68 0.352967
Target:  5'- cGGCGAgCUGCCGAagGUCgucgaauuuGGCGAGCAc- -3'
miRNA:   3'- -UUGCU-GGCGGCUa-CAG---------CCGCUCGUuc -5'
27668 3' -57 NC_005882.1 + 28317 0.68 0.352106
Target:  5'- cGCGGCCGCCGGcggcaccuugggcUGUaCGGCcGGCGGc -3'
miRNA:   3'- uUGCUGGCGGCU-------------ACA-GCCGcUCGUUc -5'
27668 3' -57 NC_005882.1 + 13073 0.69 0.336032
Target:  5'- uGCGGCgGCUGgcGUCgacguGGUGGGCGAGg -3'
miRNA:   3'- uUGCUGgCGGCuaCAG-----CCGCUCGUUC- -5'
27668 3' -57 NC_005882.1 + 636 0.69 0.319698
Target:  5'- -uCGG-CGCCGAUGUCGGCcAGCu-- -3'
miRNA:   3'- uuGCUgGCGGCUACAGCCGcUCGuuc -5'
27668 3' -57 NC_005882.1 + 32118 0.69 0.319698
Target:  5'- cGCGAUCGuuG-UGUCGGCGccGGCAu- -3'
miRNA:   3'- uUGCUGGCggCuACAGCCGC--UCGUuc -5'
27668 3' -57 NC_005882.1 + 21411 0.71 0.260365
Target:  5'- cACGGCCaGCUucagGUCGGCGAGCGu- -3'
miRNA:   3'- uUGCUGG-CGGcua-CAGCCGCUCGUuc -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.