miRNA display CGI


Results 1 - 20 of 29 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
18842 5' -57.3 NC_004683.1 + 7619 0.66 0.604169
Target:  5'- -uGCAGGGGCacCGGCCgucGugGUGCg -3'
miRNA:   3'- cuCGUCCUUGa-GCCGGac-UugCGCGa -5'
18842 5' -57.3 NC_004683.1 + 52482 0.66 0.604169
Target:  5'- -cGCAGGGucucgcgcgcugGCUCGGCaaGcACGUGCa -3'
miRNA:   3'- cuCGUCCU------------UGAGCCGgaCuUGCGCGa -5'
18842 5' -57.3 NC_004683.1 + 46216 0.66 0.593262
Target:  5'- -cGCAGGcgUUCGGUCcggGGGCGcCGCa -3'
miRNA:   3'- cuCGUCCuuGAGCCGGa--CUUGC-GCGa -5'
18842 5' -57.3 NC_004683.1 + 14396 0.66 0.593262
Target:  5'- -cGCAGGAGCUgaccuUGGuCCU--GCGCGCc -3'
miRNA:   3'- cuCGUCCUUGA-----GCC-GGAcuUGCGCGa -5'
18842 5' -57.3 NC_004683.1 + 33675 0.66 0.592173
Target:  5'- cAGCGGGAugacgauGCUCGuGCCgggGAcCGgGCUg -3'
miRNA:   3'- cUCGUCCU-------UGAGC-CGGa--CUuGCgCGA- -5'
18842 5' -57.3 NC_004683.1 + 47179 0.66 0.571554
Target:  5'- cGAGCAGGuGCgccaGGCCgGcAACGCGg- -3'
miRNA:   3'- -CUCGUCCuUGag--CCGGaC-UUGCGCga -5'
18842 5' -57.3 NC_004683.1 + 43664 0.66 0.571554
Target:  5'- -uGCAGGuGCUCGuGCCgcagcuGGCGCGUg -3'
miRNA:   3'- cuCGUCCuUGAGC-CGGac----UUGCGCGa -5'
18842 5' -57.3 NC_004683.1 + 16541 0.66 0.56077
Target:  5'- cGGGCGGGugcccacacugcGGCUCGGUg-GAGCGCGg- -3'
miRNA:   3'- -CUCGUCC------------UUGAGCCGgaCUUGCGCga -5'
18842 5' -57.3 NC_004683.1 + 12235 0.67 0.550042
Target:  5'- gGGGCGGGAGCgccCGGCgUGccgauGCccgGCGCUg -3'
miRNA:   3'- -CUCGUCCUUGa--GCCGgACu----UG---CGCGA- -5'
18842 5' -57.3 NC_004683.1 + 5272 0.67 0.539378
Target:  5'- -uGCAGGGccuGCUCGGCUgccucGAAC-CGCg -3'
miRNA:   3'- cuCGUCCU---UGAGCCGGa----CUUGcGCGa -5'
18842 5' -57.3 NC_004683.1 + 15011 0.67 0.528786
Target:  5'- cGGCAcGAACUCGcGCCUcGGCGCGg- -3'
miRNA:   3'- cUCGUcCUUGAGC-CGGAcUUGCGCga -5'
18842 5' -57.3 NC_004683.1 + 33449 0.67 0.51827
Target:  5'- cAGCAGcGAuCUCGGCUUGggUGUaGCc -3'
miRNA:   3'- cUCGUC-CUuGAGCCGGACuuGCG-CGa -5'
18842 5' -57.3 NC_004683.1 + 48229 0.67 0.507839
Target:  5'- cGGCGGGAACaaaUCGcGCCgaaaUGAGCGaCGCc -3'
miRNA:   3'- cUCGUCCUUG---AGC-CGG----ACUUGC-GCGa -5'
18842 5' -57.3 NC_004683.1 + 1971 0.67 0.507839
Target:  5'- -uGCGGGAucgaGGCCgccGACGCGCUg -3'
miRNA:   3'- cuCGUCCUugagCCGGac-UUGCGCGA- -5'
18842 5' -57.3 NC_004683.1 + 33620 0.67 0.507839
Target:  5'- aGGCGuGGAAgUCGGCCgcGAACGC-CUu -3'
miRNA:   3'- cUCGU-CCUUgAGCCGGa-CUUGCGcGA- -5'
18842 5' -57.3 NC_004683.1 + 5359 0.67 0.49647
Target:  5'- gGGGCGGGcuugaucgcgucgAGCUCGGCCUG-GCGaCGg- -3'
miRNA:   3'- -CUCGUCC-------------UUGAGCCGGACuUGC-GCga -5'
18842 5' -57.3 NC_004683.1 + 7378 0.68 0.446351
Target:  5'- cGAGCAcccGGAggcGCUCGaCCUGGauucggcggccggGCGCGCUg -3'
miRNA:   3'- -CUCGU---CCU---UGAGCcGGACU-------------UGCGCGA- -5'
18842 5' -57.3 NC_004683.1 + 9274 0.68 0.43763
Target:  5'- -cGCGGGGcgcauGCcCGGgCUGGACGUGCg -3'
miRNA:   3'- cuCGUCCU-----UGaGCCgGACUUGCGCGa -5'
18842 5' -57.3 NC_004683.1 + 32958 0.68 0.43763
Target:  5'- cGGGUAGGugAACcCGGCCgGGGCGgGCg -3'
miRNA:   3'- -CUCGUCC--UUGaGCCGGaCUUGCgCGa -5'
18842 5' -57.3 NC_004683.1 + 5216 0.69 0.418605
Target:  5'- uGGCGGcGAaguACUCGGCgaGGGCgGCGCg -3'
miRNA:   3'- cUCGUC-CU---UGAGCCGgaCUUG-CGCGa -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.