miRNA display CGI


Results 1 - 20 of 33 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
12867 3' -58.7 NC_003387.1 + 3917 0.66 0.516256
Target:  5'- --cGCCuGGGUGCuaacgcccGGUGG--GCGCUGCu -3'
miRNA:   3'- agaCGG-CCCACG--------CCAUCgaCGUGACG- -5'
12867 3' -58.7 NC_003387.1 + 49890 0.66 0.515216
Target:  5'- -aUGCCGGcgagagccgauuuGUGCGcugAGCUGCGCgucGCc -3'
miRNA:   3'- agACGGCC-------------CACGCca-UCGACGUGa--CG- -5'
12867 3' -58.7 NC_003387.1 + 45376 0.66 0.505902
Target:  5'- uUUUGCCG---GCGGuUAGCUGCGCccgGCc -3'
miRNA:   3'- -AGACGGCccaCGCC-AUCGACGUGa--CG- -5'
12867 3' -58.7 NC_003387.1 + 4662 0.66 0.505902
Target:  5'- --cGCUucgGGGcGCGGUAGCggGUgaACUGCu -3'
miRNA:   3'- agaCGG---CCCaCGCCAUCGa-CG--UGACG- -5'
12867 3' -58.7 NC_003387.1 + 7516 0.66 0.495638
Target:  5'- gUCUGCggccgaGGGUGaacgagAGCgGCACUGCu -3'
miRNA:   3'- -AGACGg-----CCCACgcca--UCGaCGUGACG- -5'
12867 3' -58.7 NC_003387.1 + 45376 0.66 0.495638
Target:  5'- -aUGCC-GGUGCGGUacGGCcGCAgccgUUGCu -3'
miRNA:   3'- agACGGcCCACGCCA--UCGaCGU----GACG- -5'
12867 3' -58.7 NC_003387.1 + 7791 0.66 0.475402
Target:  5'- gCUGcCCGaGGUGCaGGccgAGCUGCAacgccugGCg -3'
miRNA:   3'- aGAC-GGC-CCACG-CCa--UCGACGUga-----CG- -5'
12867 3' -58.7 NC_003387.1 + 49223 0.67 0.455586
Target:  5'- aUCUGCCGGucgagGCGGccgAGCg--GCUGCu -3'
miRNA:   3'- -AGACGGCCca---CGCCa--UCGacgUGACG- -5'
12867 3' -58.7 NC_003387.1 + 3036 0.67 0.455586
Target:  5'- -aUGCCGGGcUGCac--GCUcaGCACUGCu -3'
miRNA:   3'- agACGGCCC-ACGccauCGA--CGUGACG- -5'
12867 3' -58.7 NC_003387.1 + 39911 0.67 0.436224
Target:  5'- aCUGCCccGGGacgacUGCGGUcguugcgaGGCgcGCAUUGCg -3'
miRNA:   3'- aGACGG--CCC-----ACGCCA--------UCGa-CGUGACG- -5'
12867 3' -58.7 NC_003387.1 + 12217 0.67 0.436224
Target:  5'- -gUGCCGGGccaccgGCGGUcGCcaGCGCaGCg -3'
miRNA:   3'- agACGGCCCa-----CGCCAuCGa-CGUGaCG- -5'
12867 3' -58.7 NC_003387.1 + 25506 0.67 0.435268
Target:  5'- cUCgGCCGGGUcgaccgcagacuuGCGccGGUUGCGCUcGCg -3'
miRNA:   3'- -AGaCGGCCCA-------------CGCcaUCGACGUGA-CG- -5'
12867 3' -58.7 NC_003387.1 + 39574 0.67 0.426722
Target:  5'- uUCUGCaCGcGGUGCucGGcguccucaAGCUGCGCcGCg -3'
miRNA:   3'- -AGACG-GC-CCACG--CCa-------UCGACGUGaCG- -5'
12867 3' -58.7 NC_003387.1 + 44866 0.67 0.426722
Target:  5'- aCUGCCGcaaGGUGCuGGccgAGCUGaCGCaGCc -3'
miRNA:   3'- aGACGGC---CCACG-CCa--UCGAC-GUGaCG- -5'
12867 3' -58.7 NC_003387.1 + 49194 0.67 0.417345
Target:  5'- --cGCCuGGG-GCGGcGGCggggGCACUGg -3'
miRNA:   3'- agaCGG-CCCaCGCCaUCGa---CGUGACg -5'
12867 3' -58.7 NC_003387.1 + 52055 0.67 0.417345
Target:  5'- cCUGCCGGG-GCuGG-GGgaGCACaucgUGCa -3'
miRNA:   3'- aGACGGCCCaCG-CCaUCgaCGUG----ACG- -5'
12867 3' -58.7 NC_003387.1 + 4532 0.67 0.408094
Target:  5'- --cGCCGccGGUGCGGgcaccuugcgGGcCUGCGcCUGCg -3'
miRNA:   3'- agaCGGC--CCACGCCa---------UC-GACGU-GACG- -5'
12867 3' -58.7 NC_003387.1 + 16203 0.68 0.381126
Target:  5'- gCUGUCGGG-GCuc-AGcCUGCGCUGCc -3'
miRNA:   3'- aGACGGCCCaCGccaUC-GACGUGACG- -5'
12867 3' -58.7 NC_003387.1 + 43348 0.68 0.380248
Target:  5'- cUCgcggGCCGGGaGCGGcacgaaacggagaUAGCUcGC-CUGCa -3'
miRNA:   3'- -AGa---CGGCCCaCGCC-------------AUCGA-CGuGACG- -5'
12867 3' -58.7 NC_003387.1 + 19896 0.68 0.372405
Target:  5'- --cGCCccgcGGUGCGG--GCUGCGCUGa -3'
miRNA:   3'- agaCGGc---CCACGCCauCGACGUGACg -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.