miRNA display CGI


Results 1 - 17 of 17 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
19504 5' -58.4 NC_004685.1 + 3240 0.66 0.622188
Target:  5'- gGGGUCGGgCCGgaccaucggcgccGGUUUGGGUU-CGGUGa -3'
miRNA:   3'- -UCUAGUC-GGC-------------UCGGACCCAAgGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 39315 0.66 0.612606
Target:  5'- --uUCAGCCGAGCCUugucGGcgUCGGUc -3'
miRNA:   3'- ucuAGUCGGCUCGGAc---CCaaGGCCAc -5'
19504 5' -58.4 NC_004685.1 + 62847 0.66 0.59137
Target:  5'- nGGGUCacggcgggAGCCGGugcGCCUGGGg--CGGUGc -3'
miRNA:   3'- -UCUAG--------UCGGCU---CGGACCCaagGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 13630 0.66 0.580795
Target:  5'- ---gCGGCCGAGCacgaCUGGGUgcgCUGGg- -3'
miRNA:   3'- ucuaGUCGGCUCG----GACCCAa--GGCCac -5'
19504 5' -58.4 NC_004685.1 + 3464 0.66 0.570261
Target:  5'- cGG-CAGCCaAGUUUGaGGUUCUGGUGc -3'
miRNA:   3'- uCUaGUCGGcUCGGAC-CCAAGGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 25991 0.66 0.570261
Target:  5'- ---cCAGCCGGGCa-GGGUgcgcagCCGGUc -3'
miRNA:   3'- ucuaGUCGGCUCGgaCCCAa-----GGCCAc -5'
19504 5' -58.4 NC_004685.1 + 27547 0.67 0.53897
Target:  5'- cGGUCauGGCCGcAGC--GGGUUCCGGg- -3'
miRNA:   3'- uCUAG--UCGGC-UCGgaCCCAAGGCCac -5'
19504 5' -58.4 NC_004685.1 + 19976 0.68 0.49822
Target:  5'- -uGUCGGCC-AGCaucGGGUUCCuGGUGa -3'
miRNA:   3'- ucUAGUCGGcUCGga-CCCAAGG-CCAC- -5'
19504 5' -58.4 NC_004685.1 + 29424 0.68 0.495218
Target:  5'- gAGcAUCAGCgCGAucacucagaacuugGCCgagGGGUUCCGGc- -3'
miRNA:   3'- -UC-UAGUCG-GCU--------------CGGa--CCCAAGGCCac -5'
19504 5' -58.4 NC_004685.1 + 39454 0.68 0.488244
Target:  5'- ----gGGCCGcGCCUGGGUccaguUCCGGc- -3'
miRNA:   3'- ucuagUCGGCuCGGACCCA-----AGGCCac -5'
19504 5' -58.4 NC_004685.1 + 62823 0.68 0.488244
Target:  5'- gGGGcCGGCUGAGCCgGGGcacCCGGg- -3'
miRNA:   3'- -UCUaGUCGGCUCGGaCCCaa-GGCCac -5'
19504 5' -58.4 NC_004685.1 + 32735 0.68 0.458904
Target:  5'- cGG-CAGCCGAGCC-GGGUgguggaCCGGc- -3'
miRNA:   3'- uCUaGUCGGCUCGGaCCCAa-----GGCCac -5'
19504 5' -58.4 NC_004685.1 + 32859 0.69 0.412196
Target:  5'- cAGAUCAGCCugcacguugGGGCC--GGUgCCGGUGa -3'
miRNA:   3'- -UCUAGUCGG---------CUCGGacCCAaGGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 35171 0.71 0.343917
Target:  5'- ---cCAGCCGAGCCaGGcGUUCUGGc- -3'
miRNA:   3'- ucuaGUCGGCUCGGaCC-CAAGGCCac -5'
19504 5' -58.4 NC_004685.1 + 31204 0.71 0.312961
Target:  5'- ---cCAGgCGGGCCuUGGGUUccCCGGUGg -3'
miRNA:   3'- ucuaGUCgGCUCGG-ACCCAA--GGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 4177 0.73 0.227092
Target:  5'- ---cCGGCCGAGCCUGcccgacGGUUacCCGGUGg -3'
miRNA:   3'- ucuaGUCGGCUCGGAC------CCAA--GGCCAC- -5'
19504 5' -58.4 NC_004685.1 + 47188 1.07 0.000832
Target:  5'- aAGAUCAGCCGAGCCUGGGUUCCGGUGu -3'
miRNA:   3'- -UCUAGUCGGCUCGGACCCAAGGCCAC- -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.