miRNA display CGI


Results 1 - 20 of 43 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
23503 3' -58 NC_005259.1 + 1901 0.68 0.506365
Target:  5'- -cGCGCGAGcuGCCGAggAAGCgCGcCGCc -3'
miRNA:   3'- guCGCGCUCc-CGGCU--UUCGaGCaGCG- -5'
23503 3' -58 NC_005259.1 + 4318 0.69 0.457239
Target:  5'- gAGCGCGAccaaccucGuGCCGGAc-CUCGUCGCg -3'
miRNA:   3'- gUCGCGCU--------CcCGGCUUucGAGCAGCG- -5'
23503 3' -58 NC_005259.1 + 8774 0.67 0.578537
Target:  5'- cCAGCGCGGcGGUgauGAGCUCGgccCGCu -3'
miRNA:   3'- -GUCGCGCUcCCGgcuUUCGAGCa--GCG- -5'
23503 3' -58 NC_005259.1 + 9497 0.67 0.578537
Target:  5'- gAG-GCGAGGaaCGugcGCUCGUCGCg -3'
miRNA:   3'- gUCgCGCUCCcgGCuuuCGAGCAGCG- -5'
23503 3' -58 NC_005259.1 + 10626 0.7 0.401851
Target:  5'- gGGUGCGucGaGGCCGAAcAGCUUGgccUCGCg -3'
miRNA:   3'- gUCGCGCu-C-CCGGCUU-UCGAGC---AGCG- -5'
23503 3' -58 NC_005259.1 + 11072 0.68 0.49635
Target:  5'- uCAGCGUGGaaGCCGuacGGCUCGaccUCGCa -3'
miRNA:   3'- -GUCGCGCUccCGGCuu-UCGAGC---AGCG- -5'
23503 3' -58 NC_005259.1 + 11306 0.79 0.108248
Target:  5'- gGGCGUGA-GGCCGAGacgggcgcgcAGCUCGUCGUc -3'
miRNA:   3'- gUCGCGCUcCCGGCUU----------UCGAGCAGCG- -5'
23503 3' -58 NC_005259.1 + 11802 0.73 0.250633
Target:  5'- gGGCGCGAc--CCGcuuGAGCUCGUCGCu -3'
miRNA:   3'- gUCGCGCUcccGGCu--UUCGAGCAGCG- -5'
23503 3' -58 NC_005259.1 + 15586 0.77 0.156035
Target:  5'- cCAGCGCGAcGGGCCGcauGAGCUacggcagccccgaGUUGCa -3'
miRNA:   3'- -GUCGCGCU-CCCGGCu--UUCGAg------------CAGCG- -5'
23503 3' -58 NC_005259.1 + 16500 0.75 0.213263
Target:  5'- -cGCGCGcauGGCCGAGAGCgaggcgcugcgagCGUCGCu -3'
miRNA:   3'- guCGCGCuc-CCGGCUUUCGa------------GCAGCG- -5'
23503 3' -58 NC_005259.1 + 17768 0.68 0.486425
Target:  5'- -cGCGCGccGGGCCGAgcGCaccgagCGUgCGCa -3'
miRNA:   3'- guCGCGCu-CCCGGCUuuCGa-----GCA-GCG- -5'
23503 3' -58 NC_005259.1 + 21245 0.7 0.429018
Target:  5'- gCAGCGCGcGGGUUcugGAAAGCccauggUCGUCGg -3'
miRNA:   3'- -GUCGCGCuCCCGG---CUUUCG------AGCAGCg -5'
23503 3' -58 NC_005259.1 + 21920 0.66 0.662203
Target:  5'- cCAGCGCGAGGcaGUCGAggccaucGAGuCUCacuggCGCa -3'
miRNA:   3'- -GUCGCGCUCC--CGGCU-------UUC-GAGca---GCG- -5'
23503 3' -58 NC_005259.1 + 23312 0.67 0.588013
Target:  5'- cCGGCGCGGucGGugucGCCGAGccggauuacaucgGGCUCGagGCu -3'
miRNA:   3'- -GUCGCGCU--CC----CGGCUU-------------UCGAGCagCG- -5'
23503 3' -58 NC_005259.1 + 24743 0.71 0.334989
Target:  5'- gCGGUGUGGGGuGCCGAGGcGCUCaUCGa -3'
miRNA:   3'- -GUCGCGCUCC-CGGCUUU-CGAGcAGCg -5'
23503 3' -58 NC_005259.1 + 26448 0.67 0.599631
Target:  5'- gGGCGgGccgguGGGCCGAuguggaacGAGCacacguagUUGUCGCg -3'
miRNA:   3'- gUCGCgCu----CCCGGCU--------UUCG--------AGCAGCG- -5'
23503 3' -58 NC_005259.1 + 27426 0.71 0.358258
Target:  5'- --cCGCGAGGaauuggcucacgcGUCGcauGAGCUCGUCGCg -3'
miRNA:   3'- gucGCGCUCC-------------CGGCu--UUCGAGCAGCG- -5'
23503 3' -58 NC_005259.1 + 27836 0.71 0.334989
Target:  5'- -uGCGCGAGguaGGCCGcGAGgUCG-CGCg -3'
miRNA:   3'- guCGCGCUC---CCGGCuUUCgAGCaGCG- -5'
23503 3' -58 NC_005259.1 + 27996 0.67 0.599631
Target:  5'- uGGUGCGGGuGCCGGG-GCgggGUCGCc -3'
miRNA:   3'- gUCGCGCUCcCGGCUUuCGag-CAGCG- -5'
23503 3' -58 NC_005259.1 + 29402 0.67 0.578537
Target:  5'- ----cCGAGGGCCucggcGAGCUCGUgCGCg -3'
miRNA:   3'- gucgcGCUCCCGGcu---UUCGAGCA-GCG- -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.