miRNA display CGI


Results 1 - 13 of 13 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
13213 3' -58.8 NC_003401.1 + 87983 0.66 0.79305
Target:  5'- uGG-CACGagugUCUGUGGC--GGGCGUgCGg -3'
miRNA:   3'- gCCaGUGC----AGACGCCGuaCCCGCA-GC- -5'
13213 3' -58.8 NC_003401.1 + 118630 0.66 0.79305
Target:  5'- aCGGgaggCGCGccgcUUGCGuGCGUGaGGUGUCGc -3'
miRNA:   3'- -GCCa---GUGCa---GACGC-CGUAC-CCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 79853 0.66 0.784085
Target:  5'- gCGGUUGCGguugcagacgccUCgGUGGCcgGGGCGgUCa -3'
miRNA:   3'- -GCCAGUGC------------AGaCGCCGuaCCCGC-AGc -5'
13213 3' -58.8 NC_003401.1 + 132525 0.66 0.784085
Target:  5'- gCGG-CGCGgg-GCGGCcggGGGCGgCGg -3'
miRNA:   3'- -GCCaGUGCagaCGCCGua-CCCGCaGC- -5'
13213 3' -58.8 NC_003401.1 + 44117 0.66 0.763911
Target:  5'- uGGUCguguacaGCGUCaccuCGGCuagguugacgucgGUGGGCGUCGu -3'
miRNA:   3'- gCCAG-------UGCAGac--GCCG-------------UACCCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 40152 0.67 0.71813
Target:  5'- aGGUCAgGUUgacgGgGGCAUGuccgguccGGCGUCu -3'
miRNA:   3'- gCCAGUgCAGa---CgCCGUAC--------CCGCAGc -5'
13213 3' -58.8 NC_003401.1 + 127888 0.68 0.698518
Target:  5'- cCGGUgCGCGccagCUGCuGGCAgUGGaGUGUCGc -3'
miRNA:   3'- -GCCA-GUGCa---GACG-CCGU-ACC-CGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 82357 0.68 0.698518
Target:  5'- uGG-CACGagugUCUGUGGC--GGGCGUUGu -3'
miRNA:   3'- gCCaGUGC----AGACGCCGuaCCCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 35353 0.68 0.657716
Target:  5'- cCGGUUcuuuuugACGUCUGCGGU----GCGUCGg -3'
miRNA:   3'- -GCCAG-------UGCAGACGCCGuaccCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 103347 0.7 0.578606
Target:  5'- gCGGUagccguagaaACGgcCUGUGGCGuggguaUGGGCGUCGg -3'
miRNA:   3'- -GCCAg---------UGCa-GACGCCGU------ACCCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 42986 0.72 0.454513
Target:  5'- aGGUaACGUCUGCaGUAacGGGCGUCa -3'
miRNA:   3'- gCCAgUGCAGACGcCGUa-CCCGCAGc -5'
13213 3' -58.8 NC_003401.1 + 69335 0.74 0.354682
Target:  5'- cCGG-CACGUCU-CGGCAgguggaaggguccgcGGGCGUCGa -3'
miRNA:   3'- -GCCaGUGCAGAcGCCGUa--------------CCCGCAGC- -5'
13213 3' -58.8 NC_003401.1 + 41731 1.09 0.001455
Target:  5'- aCGGUCACGUCUGCGGCAUGGGCGUCGa -3'
miRNA:   3'- -GCCAGUGCAGACGCCGUACCCGCAGC- -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.