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
262 3' -66 AC_000008.1 + 8653 0.66 0.18366
Target:  5'- gGCGCCGCG-CGCgGGCaggagcuGGUgCUGCGc -3'
miRNA:   3'- aCGCGGCGCgGCGgUCG-------CCA-GGCGCu -5'
262 3' -66 AC_000008.1 + 11268 0.66 0.179412
Target:  5'- aGCGCCcUGCCgcaagGCCAGCugcuuGUCCGCu- -3'
miRNA:   3'- aCGCGGcGCGG-----CGGUCGc----CAGGCGcu -5'
262 3' -66 AC_000008.1 + 25260 0.66 0.174795
Target:  5'- gGCGaggCGCGCCGCgAcuacGUCCGCGAc -3'
miRNA:   3'- aCGCg--GCGCGGCGgUcgc-CAGGCGCU- -5'
262 3' -66 AC_000008.1 + 19546 0.66 0.165877
Target:  5'- aUG-GCCGCgGCUGCUgcGGCGG-CCGCu- -3'
miRNA:   3'- -ACgCGGCG-CGGCGG--UCGCCaGGCGcu -5'
262 3' -66 AC_000008.1 + 21680 0.66 0.165877
Target:  5'- aGCGCCGcCGCCaCUGGCG--CCGCGc -3'
miRNA:   3'- aCGCGGC-GCGGcGGUCGCcaGGCGCu -5'
262 3' -66 AC_000008.1 + 17269 0.66 0.165877
Target:  5'- -aUGCCGCGgUGCaGGCGGUCgcUGCGGc -3'
miRNA:   3'- acGCGGCGCgGCGgUCGCCAG--GCGCU- -5'
262 3' -66 AC_000008.1 + 26389 0.66 0.161572
Target:  5'- --gGCCGCGCCGUCAccgagaccauGCGccgucgCCGCGGg -3'
miRNA:   3'- acgCGGCGCGGCGGU----------CGCca----GGCGCU- -5'
262 3' -66 AC_000008.1 + 14195 0.67 0.153265
Target:  5'- gGUGagCGCGgCGCCAGUGG-CgGCGGc -3'
miRNA:   3'- aCGCg-GCGCgGCGGUCGCCaGgCGCU- -5'
262 3' -66 AC_000008.1 + 12086 0.67 0.149258
Target:  5'- gGUGCCGCGCacacccaGCCcGCGGccaucgaccUCgGCGGc -3'
miRNA:   3'- aCGCGGCGCGg------CGGuCGCC---------AGgCGCU- -5'
262 3' -66 AC_000008.1 + 27352 0.67 0.145347
Target:  5'- cGCGgcccaCCGC-CCGCCGcGCGGUaccguagucgcgCCGCGGg -3'
miRNA:   3'- aCGC-----GGCGcGGCGGU-CGCCA------------GGCGCU- -5'
262 3' -66 AC_000008.1 + 5594 0.67 0.137803
Target:  5'- cGCGCCGCagGCCcCgCAGaCGGUCuCGCa- -3'
miRNA:   3'- aCGCGGCG--CGGcG-GUC-GCCAG-GCGcu -5'
262 3' -66 AC_000008.1 + 23558 0.68 0.130621
Target:  5'- aGCGCCGC-CCGCaccGCcgGGUCCGUu- -3'
miRNA:   3'- aCGCGGCGcGGCGgu-CG--CCAGGCGcu -5'
262 3' -66 AC_000008.1 + 19698 0.69 0.094338
Target:  5'- aGUGCCGgGUCGgCGGCGG-UgGCGAc -3'
miRNA:   3'- aCGCGGCgCGGCgGUCGCCaGgCGCU- -5'
262 3' -66 AC_000008.1 + 23688 0.69 0.09408
Target:  5'- aGCGCgCGCGggugccaCCGCCAGCccaGGUCCGg-- -3'
miRNA:   3'- aCGCG-GCGC-------GGCGGUCG---CCAGGCgcu -5'
262 3' -66 AC_000008.1 + 8525 0.72 0.054193
Target:  5'- gGUaCCGCGCgGCgGGCGGUgggCCGCGGg -3'
miRNA:   3'- aCGcGGCGCGgCGgUCGCCA---GGCGCU- -5'
262 3' -66 AC_000008.1 + 18115 0.75 0.030843
Target:  5'- cGCGCgC-CGCCGCCGGUGGUgCGCa- -3'
miRNA:   3'- aCGCG-GcGCGGCGGUCGCCAgGCGcu -5'
262 3' -66 AC_000008.1 + 18615 1.07 0.000074
Target:  5'- cUGCGCCGCGCCGCCAGCGGUCCGCGAu -3'
miRNA:   3'- -ACGCGGCGCGGCGGUCGCCAGGCGCU- -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.