miRNA display CGI


Results 1 - 20 of 34 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
15791 3' -56.8 NC_004065.1 + 127732 0.94 0.039195
Target:  5'- aGCCUCUCGACGCgu-CCUCGUCCGAGa -3'
miRNA:   3'- -CGGAGAGCUGCGaacGGAGCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 103117 0.75 0.548962
Target:  5'- gGCCUCcagaUCGACGUg---CUCGUCCGAGg -3'
miRNA:   3'- -CGGAG----AGCUGCGaacgGAGCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 81174 0.73 0.607253
Target:  5'- cGCCUcCUCGAuCGCggcggccGCCUCGUggCCGAGc -3'
miRNA:   3'- -CGGA-GAGCU-GCGaa-----CGGAGCA--GGCUC- -5'
15791 3' -56.8 NC_004065.1 + 33394 0.71 0.742917
Target:  5'- aGCCUCUCGagGCGCUcGCCccggCGcaUCCGAc -3'
miRNA:   3'- -CGGAGAGC--UGCGAaCGGa---GC--AGGCUc -5'
15791 3' -56.8 NC_004065.1 + 120583 0.7 0.788266
Target:  5'- aCCUC-CGGCGCcgGUCUCGgCCGGGu -3'
miRNA:   3'- cGGAGaGCUGCGaaCGGAGCaGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 198914 0.7 0.788266
Target:  5'- aGCCUCUCGAuCGCgcGCCg---CCGGGc -3'
miRNA:   3'- -CGGAGAGCU-GCGaaCGGagcaGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 132578 0.7 0.813986
Target:  5'- cCUUCUUGAUGaagugUGCCUCGUCCa-- -3'
miRNA:   3'- cGGAGAGCUGCga---ACGGAGCAGGcuc -5'
15791 3' -56.8 NC_004065.1 + 206029 0.69 0.830384
Target:  5'- gGCgUCUCGuCGCUcUGUCUCaucgCCGAGg -3'
miRNA:   3'- -CGgAGAGCuGCGA-ACGGAGca--GGCUC- -5'
15791 3' -56.8 NC_004065.1 + 30587 0.69 0.861137
Target:  5'- cGCCg--CGGCGagcGCCUCGUCCGc- -3'
miRNA:   3'- -CGGagaGCUGCgaaCGGAGCAGGCuc -5'
15791 3' -56.8 NC_004065.1 + 98269 0.68 0.882223
Target:  5'- gGCC-CUgGGCGCgcGCCUCGcggaUCCGGa -3'
miRNA:   3'- -CGGaGAgCUGCGaaCGGAGC----AGGCUc -5'
15791 3' -56.8 NC_004065.1 + 211670 0.68 0.888849
Target:  5'- gGCCUCUuuUGA-GCcUGCCUCGcuUUCGAGg -3'
miRNA:   3'- -CGGAGA--GCUgCGaACGGAGC--AGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 118646 0.68 0.880874
Target:  5'- uCCUcCUCGGCGUcggacgacgacGCCUCGUCCuGGGa -3'
miRNA:   3'- cGGA-GAGCUGCGaa---------CGGAGCAGG-CUC- -5'
15791 3' -56.8 NC_004065.1 + 99664 0.68 0.888849
Target:  5'- aGCCgg-CGGCGCggcGCCgacagCGUCCGGu -3'
miRNA:   3'- -CGGagaGCUGCGaa-CGGa----GCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 120016 0.68 0.880874
Target:  5'- cGCCgCUgaGGCGCUUGCCgaagaggcgcagCGUCCaGAGc -3'
miRNA:   3'- -CGGaGAg-CUGCGAACGGa-----------GCAGG-CUC- -5'
15791 3' -56.8 NC_004065.1 + 119521 0.68 0.875393
Target:  5'- aGCCUgUCGACau---CCUUGUCCGGGg -3'
miRNA:   3'- -CGGAgAGCUGcgaacGGAGCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 53863 0.68 0.868363
Target:  5'- cGCCaucgUCUCagcagacgGACGCU--CCUCGUCCGAa -3'
miRNA:   3'- -CGG----AGAG--------CUGCGAacGGAGCAGGCUc -5'
15791 3' -56.8 NC_004065.1 + 26196 0.67 0.929242
Target:  5'- cCCUUUCGAC-CUcgaacGCCU-GUCCGAGa -3'
miRNA:   3'- cGGAGAGCUGcGAa----CGGAgCAGGCUC- -5'
15791 3' -56.8 NC_004065.1 + 191248 0.67 0.924127
Target:  5'- cGCCgaCUUGAUGUgauccaGCCUCGUCuCGAa -3'
miRNA:   3'- -CGGa-GAGCUGCGaa----CGGAGCAG-GCUc -5'
15791 3' -56.8 NC_004065.1 + 188986 0.67 0.924127
Target:  5'- gGCCgUUUUGGCGCagGCCUCGaUCgGAu -3'
miRNA:   3'- -CGG-AGAGCUGCGaaCGGAGC-AGgCUc -5'
15791 3' -56.8 NC_004065.1 + 143649 0.67 0.918791
Target:  5'- uCCUCggggCGACGCgugGaCCUCGggaCCGAa -3'
miRNA:   3'- cGGAGa---GCUGCGaa-C-GGAGCa--GGCUc -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.