miRNA display CGI


Results 1 - 13 of 13 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
7195 3' -54.2 NC_001900.1 + 25865 1.12 0.000755
Target:  5'- gAGUUCGACUGAGUCGUACCGGCCAGCu -3'
miRNA:   3'- -UCAAGCUGACUCAGCAUGGCCGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 32649 0.76 0.233993
Target:  5'- gGGUUCGgucggucgaaGCUGAGguagcaGUuCCGGCCAGCg -3'
miRNA:   3'- -UCAAGC----------UGACUCag----CAuGGCCGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 15716 0.68 0.646259
Target:  5'- ---cCGACUGAGUCGccCUGGgaucccccugcCCAGCa -3'
miRNA:   3'- ucaaGCUGACUCAGCauGGCC-----------GGUCG- -5'
7195 3' -54.2 NC_001900.1 + 18159 0.68 0.646259
Target:  5'- cAGUcgcCGAgUGGGUCGgcucCUGGuCCAGCg -3'
miRNA:   3'- -UCAa--GCUgACUCAGCau--GGCC-GGUCG- -5'
7195 3' -54.2 NC_001900.1 + 3362 0.68 0.654036
Target:  5'- cGUUCuGCUGGcccacgcgaaagguGUgGUgagGCCGGCCGGCc -3'
miRNA:   3'- uCAAGcUGACU--------------CAgCA---UGGCCGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 25327 0.68 0.657366
Target:  5'- --cUCGAUgccGUCG-ACCGuGCCAGCg -3'
miRNA:   3'- ucaAGCUGacuCAGCaUGGC-CGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 39549 0.68 0.657366
Target:  5'- cAGggCGGCUGA-UCGUgauguacgACCGGCCguggacguaAGCg -3'
miRNA:   3'- -UCaaGCUGACUcAGCA--------UGGCCGG---------UCG- -5'
7195 3' -54.2 NC_001900.1 + 42534 0.67 0.690497
Target:  5'- cGGUUgGAUgccguUGAGgaucugGCUGGCCAGCg -3'
miRNA:   3'- -UCAAgCUG-----ACUCagca--UGGCCGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 37489 0.67 0.716645
Target:  5'- cGGUUccagCGGCUugucagugaccaccgGGGUCGggucGCCGGCCGGa -3'
miRNA:   3'- -UCAA----GCUGA---------------CUCAGCa---UGGCCGGUCg -5'
7195 3' -54.2 NC_001900.1 + 16478 0.66 0.744412
Target:  5'- --cUCGACgugggccaUGAGUCgGUGCUGGagcauuCCAGCg -3'
miRNA:   3'- ucaAGCUG--------ACUCAG-CAUGGCC------GGUCG- -5'
7195 3' -54.2 NC_001900.1 + 2349 0.66 0.744412
Target:  5'- ----aGAgUGAGUUGgGCCGGCUcgaAGCg -3'
miRNA:   3'- ucaagCUgACUCAGCaUGGCCGG---UCG- -5'
7195 3' -54.2 NC_001900.1 + 4529 0.66 0.764219
Target:  5'- -cUUCGAgUGguggacguggucaGGUcCGUACaaCGGCCAGCg -3'
miRNA:   3'- ucAAGCUgAC-------------UCA-GCAUG--GCCGGUCG- -5'
7195 3' -54.2 NC_001900.1 + 45123 0.66 0.765248
Target:  5'- cGUUCGcCgugGAGgcggguaccggCGUcUCGGCCAGCu -3'
miRNA:   3'- uCAAGCuGa--CUCa----------GCAuGGCCGGUCG- -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.