miRNA display CGI


Results 1 - 20 of 309 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
23713 3' -67.7 NC_005261.1 + 337 0.67 0.301376
Target:  5'- gGCUGCGGcggcccgcaGCCCGGcGCGgCCCGGcgGCGGu -3'
miRNA:   3'- gCGGCGCC---------CGGGCC-CGC-GGGUC--UGUU- -5'
23713 3' -67.7 NC_005261.1 + 1180 0.69 0.241283
Target:  5'- gCGCCGCGG-CCgGGGCcggGgCCGGGCGc -3'
miRNA:   3'- -GCGGCGCCcGGgCCCG---CgGGUCUGUu -5'
23713 3' -67.7 NC_005261.1 + 1365 0.71 0.162252
Target:  5'- -cCCGCGGGCCCuGGuccGCGuCCCAGGCc- -3'
miRNA:   3'- gcGGCGCCCGGG-CC---CGC-GGGUCUGuu -5'
23713 3' -67.7 NC_005261.1 + 1737 0.67 0.301376
Target:  5'- cCGCggugCGCGGGCCCaGGCGCgUGGcCAc -3'
miRNA:   3'- -GCG----GCGCCCGGGcCCGCGgGUCuGUu -5'
23713 3' -67.7 NC_005261.1 + 1873 0.69 0.225312
Target:  5'- gCGCCGCGaGGCCagcaCGGcGCGCgCCAGcGCGc -3'
miRNA:   3'- -GCGGCGC-CCGG----GCC-CGCG-GGUC-UGUu -5'
23713 3' -67.7 NC_005261.1 + 1935 0.73 0.127423
Target:  5'- gCGCCGCGGGCagcaCCGcGGCGCgCAGGu-- -3'
miRNA:   3'- -GCGGCGCCCG----GGC-CCGCGgGUCUguu -5'
23713 3' -67.7 NC_005261.1 + 2549 0.71 0.162252
Target:  5'- gCGCCGCggcgcuGGGCgCGGGCGugugguacucCCCGGGCGg -3'
miRNA:   3'- -GCGGCG------CCCGgGCCCGC----------GGGUCUGUu -5'
23713 3' -67.7 NC_005261.1 + 2621 0.66 0.34993
Target:  5'- gGCCGcCGGGCggcaUGGG-GCCCAGcACGc -3'
miRNA:   3'- gCGGC-GCCCGg---GCCCgCGGGUC-UGUu -5'
23713 3' -67.7 NC_005261.1 + 2761 0.66 0.335508
Target:  5'- uCGCgGCGGGCCuCGaGGCccGCCCccgagGGGCu- -3'
miRNA:   3'- -GCGgCGCCCGG-GC-CCG--CGGG-----UCUGuu -5'
23713 3' -67.7 NC_005261.1 + 2805 0.67 0.314699
Target:  5'- gGCCGggaGGGgCCGGGCGgCCCcagcccgagcucGGGCGg -3'
miRNA:   3'- gCGGCg--CCCgGGCCCGC-GGG------------UCUGUu -5'
23713 3' -67.7 NC_005261.1 + 2942 0.73 0.127423
Target:  5'- cCGCCGCGG--CCGGGCuccgGCCCGGACu- -3'
miRNA:   3'- -GCGGCGCCcgGGCCCG----CGGGUCUGuu -5'
23713 3' -67.7 NC_005261.1 + 3343 0.75 0.092468
Target:  5'- gCGCCGCGGcGCCCGGcGCGCCggccuucaGGGCc- -3'
miRNA:   3'- -GCGGCGCC-CGGGCC-CGCGGg-------UCUGuu -5'
23713 3' -67.7 NC_005261.1 + 3426 0.72 0.133785
Target:  5'- aGCgCGCGGGCCagcguccaggCGGGCGCgCGGGCc- -3'
miRNA:   3'- gCG-GCGCCCGG----------GCCCGCGgGUCUGuu -5'
23713 3' -67.7 NC_005261.1 + 3553 0.66 0.342665
Target:  5'- gCGCgGCGGGCgC-GGCGCCgcuaAGGCGc -3'
miRNA:   3'- -GCGgCGCCCGgGcCCGCGGg---UCUGUu -5'
23713 3' -67.7 NC_005261.1 + 3827 0.87 0.010188
Target:  5'- uGCCGCGGGCCCGGGCGCUgGcGGCAGc -3'
miRNA:   3'- gCGGCGCCCGGGCCCGCGGgU-CUGUU- -5'
23713 3' -67.7 NC_005261.1 + 3896 0.67 0.321525
Target:  5'- gGCgaGCGcGGCgCGGGCGCCCGcGCc- -3'
miRNA:   3'- gCGg-CGC-CCGgGCCCGCGGGUcUGuu -5'
23713 3' -67.7 NC_005261.1 + 4294 0.67 0.321525
Target:  5'- gGCCGCGGGcCCCGcGGcCGCCgcgUAGcGCGc -3'
miRNA:   3'- gCGGCGCCC-GGGC-CC-GCGG---GUC-UGUu -5'
23713 3' -67.7 NC_005261.1 + 4485 0.67 0.288493
Target:  5'- gCGCCGCGGcguagccuGCgCGGGC-CCCAGuCGc -3'
miRNA:   3'- -GCGGCGCC--------CGgGCCCGcGGGUCuGUu -5'
23713 3' -67.7 NC_005261.1 + 4531 0.67 0.314699
Target:  5'- gCGCCGCggcgaGGGCgCCGGGCccugGCCUuGGCu- -3'
miRNA:   3'- -GCGGCG-----CCCG-GGCCCG----CGGGuCUGuu -5'
23713 3' -67.7 NC_005261.1 + 4571 0.68 0.269986
Target:  5'- cCGCgGgCGGGUCCggcgGGGCGCCCcccGGCGc -3'
miRNA:   3'- -GCGgC-GCCCGGG----CCCGCGGGu--CUGUu -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.