miRNA display CGI


Results 1 - 20 of 37 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
7013 3' -54.7 NC_001875.2 + 42099 0.66 0.924401
Target:  5'- uGCCGaaacACUCGuacGGcCGGCGCAGuccGCUGa -3'
miRNA:   3'- uCGGCa---UGAGC---CC-GCCGUGUUu--UGAC- -5'
7013 3' -54.7 NC_001875.2 + 61588 0.66 0.924401
Target:  5'- uAGCgGcgacgGCUCGGGCgccggcGGCGCuucGGGCUGu -3'
miRNA:   3'- -UCGgCa----UGAGCCCG------CCGUGu--UUUGAC- -5'
7013 3' -54.7 NC_001875.2 + 102001 0.66 0.924401
Target:  5'- cGgCGUGCgc-GGCGGCGguGGACUGc -3'
miRNA:   3'- uCgGCAUGagcCCGCCGUguUUUGAC- -5'
7013 3' -54.7 NC_001875.2 + 43111 0.66 0.918718
Target:  5'- gGGCCGUGCUCGuuaaacuCGGCGCGcauGCg- -3'
miRNA:   3'- -UCGGCAUGAGCcc-----GCCGUGUuu-UGac -5'
7013 3' -54.7 NC_001875.2 + 33242 0.66 0.918718
Target:  5'- cGCCGU-UUCGGcGCGGCGCuccGAGUUGc -3'
miRNA:   3'- uCGGCAuGAGCC-CGCCGUGu--UUUGAC- -5'
7013 3' -54.7 NC_001875.2 + 85046 0.66 0.906603
Target:  5'- -uCCGUcaACUgCGGGCGGCACGu----- -3'
miRNA:   3'- ucGGCA--UGA-GCCCGCCGUGUuuugac -5'
7013 3' -54.7 NC_001875.2 + 69736 0.66 0.906603
Target:  5'- uGCaCGgaaUCGGGCGGCGaccuGCUGc -3'
miRNA:   3'- uCG-GCaugAGCCCGCCGUguuuUGAC- -5'
7013 3' -54.7 NC_001875.2 + 39667 0.66 0.906603
Target:  5'- gGGCCGgcgGCgCGcGGCGGCG---AGCUGc -3'
miRNA:   3'- -UCGGCa--UGaGC-CCGCCGUguuUUGAC- -5'
7013 3' -54.7 NC_001875.2 + 83325 0.66 0.906603
Target:  5'- gGGCgCGcGC-CGGGCGGCGCGccaAAAUa- -3'
miRNA:   3'- -UCG-GCaUGaGCCCGCCGUGU---UUUGac -5'
7013 3' -54.7 NC_001875.2 + 8778 0.66 0.900176
Target:  5'- cAGcCCGUGCUU-GGUGGCAaacAAGCUGc -3'
miRNA:   3'- -UC-GGCAUGAGcCCGCCGUgu-UUUGAC- -5'
7013 3' -54.7 NC_001875.2 + 2463 0.66 0.900176
Target:  5'- cGCgGUugUaGGcGCGGCACGAGAUc- -3'
miRNA:   3'- uCGgCAugAgCC-CGCCGUGUUUUGac -5'
7013 3' -54.7 NC_001875.2 + 12838 0.67 0.893505
Target:  5'- uGGCCacGUAgUCGGGCaucuGGCGCGcAAACg- -3'
miRNA:   3'- -UCGG--CAUgAGCCCG----CCGUGU-UUUGac -5'
7013 3' -54.7 NC_001875.2 + 127965 0.67 0.893505
Target:  5'- uGCCcaGCUU-GGCGGCGCGGuGCUGc -3'
miRNA:   3'- uCGGcaUGAGcCCGCCGUGUUuUGAC- -5'
7013 3' -54.7 NC_001875.2 + 94247 0.67 0.893505
Target:  5'- cGCCGUGCggcCGGccGCGGCGCuc-GCg- -3'
miRNA:   3'- uCGGCAUGa--GCC--CGCCGUGuuuUGac -5'
7013 3' -54.7 NC_001875.2 + 113359 0.67 0.893505
Target:  5'- cGGCUGcgucGCUgCGGcGCGGCGCAAAAaaGg -3'
miRNA:   3'- -UCGGCa---UGA-GCC-CGCCGUGUUUUgaC- -5'
7013 3' -54.7 NC_001875.2 + 22815 0.67 0.886594
Target:  5'- uGGCCGUGCggucCGacggcaccgucGGCGGCACGAcguACg- -3'
miRNA:   3'- -UCGGCAUGa---GC-----------CCGCCGUGUUu--UGac -5'
7013 3' -54.7 NC_001875.2 + 54669 0.67 0.87726
Target:  5'- cGCCGUugUCGGGCcaGUaaaaguugccguccGCAAAGCa- -3'
miRNA:   3'- uCGGCAugAGCCCGc-CG--------------UGUUUUGac -5'
7013 3' -54.7 NC_001875.2 + 113128 0.67 0.86447
Target:  5'- cGCUGUugUUGuGCGGCACGuuAAugUGc -3'
miRNA:   3'- uCGGCAugAGCcCGCCGUGU--UUugAC- -5'
7013 3' -54.7 NC_001875.2 + 117361 0.67 0.86447
Target:  5'- gGGCCGgcugGCcgUCGGGgaGGCGCcGAGCUu -3'
miRNA:   3'- -UCGGCa---UG--AGCCCg-CCGUGuUUUGAc -5'
7013 3' -54.7 NC_001875.2 + 31604 0.68 0.848616
Target:  5'- cGCCGUGCcgUGGGCGGacCACAu-GCg- -3'
miRNA:   3'- uCGGCAUGa-GCCCGCC--GUGUuuUGac -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.