miRNA display CGI


Results 1 - 18 of 18 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
1376 3' -54 NC_001335.1 + 31537 0.66 0.771508
Target:  5'- gGGUCACCGcAGUcgCUcu-GCGUGCCAu -3'
miRNA:   3'- -UCGGUGGC-UUAuaGAccuUGCGCGGU- -5'
1376 3' -54 NC_001335.1 + 27360 0.66 0.750654
Target:  5'- uAGCCGgCGGAUcagAUCUgGGAugGCaCCGu -3'
miRNA:   3'- -UCGGUgGCUUA---UAGA-CCUugCGcGGU- -5'
1376 3' -54 NC_001335.1 + 45565 0.66 0.744295
Target:  5'- cGCCACCGAggacgaggccaucaaGgAUCUGcGGAagugguucCGCGCCGa -3'
miRNA:   3'- uCGGUGGCU---------------UaUAGAC-CUU--------GCGCGGU- -5'
1376 3' -54 NC_001335.1 + 355 0.66 0.740032
Target:  5'- -aCCGCCGGAUcUCaaGGcCGCGCCAg -3'
miRNA:   3'- ucGGUGGCUUAuAGacCUuGCGCGGU- -5'
1376 3' -54 NC_001335.1 + 14512 0.67 0.718463
Target:  5'- cGCCuucgaaGCCGAAcucagGGAGCGUGCCu -3'
miRNA:   3'- uCGG------UGGCUUauagaCCUUGCGCGGu -5'
1376 3' -54 NC_001335.1 + 13442 0.67 0.663196
Target:  5'- cGCCACuCGA---UCUGGGACuGgGCCc -3'
miRNA:   3'- uCGGUG-GCUuauAGACCUUG-CgCGGu -5'
1376 3' -54 NC_001335.1 + 21982 0.68 0.607164
Target:  5'- -cCCACCGA---UCUcGAAUGCGCCGu -3'
miRNA:   3'- ucGGUGGCUuauAGAcCUUGCGCGGU- -5'
1376 3' -54 NC_001335.1 + 41554 0.69 0.595984
Target:  5'- cGCUACCcccgGUCUGGGcCGCGCUu -3'
miRNA:   3'- uCGGUGGcuuaUAGACCUuGCGCGGu -5'
1376 3' -54 NC_001335.1 + 27086 0.69 0.584836
Target:  5'- uGGCCACCGGGcAUCUGGAugaacaccGgGaCGCUg -3'
miRNA:   3'- -UCGGUGGCUUaUAGACCU--------UgC-GCGGu -5'
1376 3' -54 NC_001335.1 + 35480 0.69 0.559366
Target:  5'- gAGCCGCCGA---UCUccgaguucuugggaGGGAgGUGCCAu -3'
miRNA:   3'- -UCGGUGGCUuauAGA--------------CCUUgCGCGGU- -5'
1376 3' -54 NC_001335.1 + 5362 0.71 0.466648
Target:  5'- cAGCuCACCGAG-AUCgccugcGcGAGCGCGCCGc -3'
miRNA:   3'- -UCG-GUGGCUUaUAGa-----C-CUUGCGCGGU- -5'
1376 3' -54 NC_001335.1 + 38898 0.72 0.417068
Target:  5'- gGGCCAUCGAGUAcCUGcuGAACcCGCCGg -3'
miRNA:   3'- -UCGGUGGCUUAUaGAC--CUUGcGCGGU- -5'
1376 3' -54 NC_001335.1 + 22554 0.72 0.407543
Target:  5'- gGGCuCAgCGAcgGUcugguccugGUCUGGGACGCGCCc -3'
miRNA:   3'- -UCG-GUgGCU--UA---------UAGACCUUGCGCGGu -5'
1376 3' -54 NC_001335.1 + 12459 0.72 0.388907
Target:  5'- cGCCACUGGcgG-CUGGAAgGUGCCc -3'
miRNA:   3'- uCGGUGGCUuaUaGACCUUgCGCGGu -5'
1376 3' -54 NC_001335.1 + 9824 0.73 0.362022
Target:  5'- cGGCCAUCGAGUcGUCUGGuggugauGCGUGaCCGc -3'
miRNA:   3'- -UCGGUGGCUUA-UAGACCu------UGCGC-GGU- -5'
1376 3' -54 NC_001335.1 + 51763 0.74 0.327418
Target:  5'- cAGCCACCGA-------GAACGCGCCAu -3'
miRNA:   3'- -UCGGUGGCUuauagacCUUGCGCGGU- -5'
1376 3' -54 NC_001335.1 + 21522 0.77 0.210936
Target:  5'- gAGCUugCGAAUGUCUGGAAUaCGCaCGg -3'
miRNA:   3'- -UCGGugGCUUAUAGACCUUGcGCG-GU- -5'
1376 3' -54 NC_001335.1 + 28697 1.09 0.001175
Target:  5'- cAGCCACCGAAUAUCUGGAACGCGCCAa -3'
miRNA:   3'- -UCGGUGGCUUAUAGACCUUGCGCGGU- -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.