miRNA display CGI


Results 1 - 20 of 24 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
19364 3' -61.7 NC_004685.1 + 46753 0.66 0.456093
Target:  5'- uGCUGCugggGguGCUGGcCGUCaucggccgGGGauUGGUGg -3'
miRNA:   3'- gCGACG----CguCGACC-GCAG--------CCC--ACCAC- -5'
19364 3' -61.7 NC_004685.1 + 42201 0.66 0.455154
Target:  5'- aCGCaaaUGCGCagGGUUGGCGcagagcuUCGGGcaGGUGu -3'
miRNA:   3'- -GCG---ACGCG--UCGACCGC-------AGCCCa-CCAC- -5'
19364 3' -61.7 NC_004685.1 + 9383 0.66 0.44675
Target:  5'- aCGCgGCGCugAGCcggaUGGCGUCgccguGGGcGGUGu -3'
miRNA:   3'- -GCGaCGCG--UCG----ACCGCAG-----CCCaCCAC- -5'
19364 3' -61.7 NC_004685.1 + 32248 0.66 0.422969
Target:  5'- gCGCUGaaCGCGGCcgcgucggccgccggUGGCG-CGGGcgguccUGGUGg -3'
miRNA:   3'- -GCGAC--GCGUCG---------------ACCGCaGCCC------ACCAC- -5'
19364 3' -61.7 NC_004685.1 + 38648 0.66 0.419378
Target:  5'- aGCUGaGCAGCugUGGCaGUCGcccaacGUGGUGg -3'
miRNA:   3'- gCGACgCGUCG--ACCG-CAGCc-----CACCAC- -5'
19364 3' -61.7 NC_004685.1 + 53791 0.66 0.419378
Target:  5'- uCGCUGCGUacugacacgccAGCU--CGUCGGGUGuGUa -3'
miRNA:   3'- -GCGACGCG-----------UCGAccGCAGCCCAC-CAc -5'
19364 3' -61.7 NC_004685.1 + 14830 0.67 0.401705
Target:  5'- gGCUGCGCAGCUGcCGgaGGGUuccaGGcUGg -3'
miRNA:   3'- gCGACGCGUCGACcGCagCCCA----CC-AC- -5'
19364 3' -61.7 NC_004685.1 + 32626 0.67 0.401705
Target:  5'- aCGCUGaaGUGGgUGGCGgaaGcGGUGGUGg -3'
miRNA:   3'- -GCGACg-CGUCgACCGCag-C-CCACCAC- -5'
19364 3' -61.7 NC_004685.1 + 45957 0.67 0.393047
Target:  5'- aCGCUgGUGgAGCaGGUGcgCGGGcUGGUGa -3'
miRNA:   3'- -GCGA-CGCgUCGaCCGCa-GCCC-ACCAC- -5'
19364 3' -61.7 NC_004685.1 + 8348 0.67 0.384512
Target:  5'- --aUGCGCAGgUGGUGgacaccgacagCGGGUcGGUGa -3'
miRNA:   3'- gcgACGCGUCgACCGCa----------GCCCA-CCAC- -5'
19364 3' -61.7 NC_004685.1 + 48404 0.67 0.376101
Target:  5'- aGCUGUu--GCUGGCaGUUGGGcGGUGc -3'
miRNA:   3'- gCGACGcguCGACCG-CAGCCCaCCAC- -5'
19364 3' -61.7 NC_004685.1 + 12478 0.67 0.367814
Target:  5'- aCGUUgGCGCGcGCUGaaGgaUCGGGUGGUGc -3'
miRNA:   3'- -GCGA-CGCGU-CGACcgC--AGCCCACCAC- -5'
19364 3' -61.7 NC_004685.1 + 59573 0.67 0.359654
Target:  5'- uGUUGCGCAgGC-GGCGgCGGGUGa-- -3'
miRNA:   3'- gCGACGCGU-CGaCCGCaGCCCACcac -5'
19364 3' -61.7 NC_004685.1 + 9258 0.67 0.359654
Target:  5'- aGCUGUGacccGCUgGGUGUCGGGaUGGa- -3'
miRNA:   3'- gCGACGCgu--CGA-CCGCAGCCC-ACCac -5'
19364 3' -61.7 NC_004685.1 + 24921 0.68 0.351621
Target:  5'- gGCccGCGCGGUgucGGCGUCGGGUc--- -3'
miRNA:   3'- gCGa-CGCGUCGa--CCGCAGCCCAccac -5'
19364 3' -61.7 NC_004685.1 + 40862 0.68 0.320776
Target:  5'- aGC-GCGguGCUGGCGUCGcGGgccgcgcGGg- -3'
miRNA:   3'- gCGaCGCguCGACCGCAGC-CCa------CCac -5'
19364 3' -61.7 NC_004685.1 + 5172 0.68 0.320776
Target:  5'- cCGC--CGCGGCUGGauuGUCggcuGGGUGGUGu -3'
miRNA:   3'- -GCGacGCGUCGACCg--CAG----CCCACCAC- -5'
19364 3' -61.7 NC_004685.1 + 25539 0.68 0.320032
Target:  5'- uGUUGCGCAGCacGGUGaUCGcggacugcagcgcGGUGGUGc -3'
miRNA:   3'- gCGACGCGUCGa-CCGC-AGC-------------CCACCAC- -5'
19364 3' -61.7 NC_004685.1 + 49186 0.68 0.313389
Target:  5'- ---cGCGCGGCUGGCuUCGGc-GGUGa -3'
miRNA:   3'- gcgaCGCGUCGACCGcAGCCcaCCAC- -5'
19364 3' -61.7 NC_004685.1 + 34144 0.69 0.285131
Target:  5'- aGCUGCGCAGCgauccGCGcaagcgCGGcGUGGUc -3'
miRNA:   3'- gCGACGCGUCGac---CGCa-----GCC-CACCAc -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.