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
30557 3' -54.3 NC_006548.1 + 29140 1.13 0.000322
Target:  5'- cGCGGCAGCAACUGCUAGACCUGCAUCg -3'
miRNA:   3'- -CGCCGUCGUUGACGAUCUGGACGUAG- -5'
30557 3' -54.3 NC_006548.1 + 36367 0.83 0.046847
Target:  5'- cUGGCuGCAGCUGCgccAGAUCUGCAUCg -3'
miRNA:   3'- cGCCGuCGUUGACGa--UCUGGACGUAG- -5'
30557 3' -54.3 NC_006548.1 + 35514 0.78 0.109349
Target:  5'- cGUGGCAaggaucGCGGcCUGCUGGACCagGCGUCa -3'
miRNA:   3'- -CGCCGU------CGUU-GACGAUCUGGa-CGUAG- -5'
30557 3' -54.3 NC_006548.1 + 21214 0.74 0.212434
Target:  5'- cCGGUAGCAcugcGCUGCU-GAUCgGCAUCa -3'
miRNA:   3'- cGCCGUCGU----UGACGAuCUGGaCGUAG- -5'
30557 3' -54.3 NC_006548.1 + 20581 0.73 0.250565
Target:  5'- aGCGGCGGCAgagGCUGCU--GCg-GCGUCg -3'
miRNA:   3'- -CGCCGUCGU---UGACGAucUGgaCGUAG- -5'
30557 3' -54.3 NC_006548.1 + 7271 0.73 0.257443
Target:  5'- cGCGGCAGa----GCUGGGCCUGUcgCu -3'
miRNA:   3'- -CGCCGUCguugaCGAUCUGGACGuaG- -5'
30557 3' -54.3 NC_006548.1 + 30500 0.73 0.257443
Target:  5'- cGCGGguGCAACUGCUGGcauggaACCaGCc-- -3'
miRNA:   3'- -CGCCguCGUUGACGAUC------UGGaCGuag -5'
30557 3' -54.3 NC_006548.1 + 14967 0.72 0.30996
Target:  5'- -gGGUAGCAGCcGUgauGACCUGCAg- -3'
miRNA:   3'- cgCCGUCGUUGaCGau-CUGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 16483 0.71 0.320568
Target:  5'- uGCGGCagagcaccuggagcAGCAGCUGCagcgcgugggcugGGACC-GCGUCa -3'
miRNA:   3'- -CGCCG--------------UCGUUGACGa------------UCUGGaCGUAG- -5'
30557 3' -54.3 NC_006548.1 + 13210 0.71 0.352232
Target:  5'- uCGGuCAGUuGCUGCUGuACCUGCAg- -3'
miRNA:   3'- cGCC-GUCGuUGACGAUcUGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 23112 0.71 0.352232
Target:  5'- aCGGCAGCAACUGagcaGCCUGgGUg -3'
miRNA:   3'- cGCCGUCGUUGACgaucUGGACgUAg -5'
30557 3' -54.3 NC_006548.1 + 37841 0.69 0.438074
Target:  5'- gGUGGCuGCuccgAACgugGCUGGugCUGCAaaUCa -3'
miRNA:   3'- -CGCCGuCG----UUGa--CGAUCugGACGU--AG- -5'
30557 3' -54.3 NC_006548.1 + 35265 0.68 0.469242
Target:  5'- cUGGCGGCGAUggugggcgGcCUGGuACCUGCGUUc -3'
miRNA:   3'- cGCCGUCGUUGa-------C-GAUC-UGGACGUAG- -5'
30557 3' -54.3 NC_006548.1 + 33315 0.68 0.469242
Target:  5'- uGCGGCGcugcGCAGcCUGCUGuacGcCCUGCGUg -3'
miRNA:   3'- -CGCCGU----CGUU-GACGAU---CuGGACGUAg -5'
30557 3' -54.3 NC_006548.1 + 32466 0.68 0.470301
Target:  5'- aCGGCGGCGACgGCUGccGGCCaggcugaugccaucgGCGUCc -3'
miRNA:   3'- cGCCGUCGUUGaCGAU--CUGGa--------------CGUAG- -5'
30557 3' -54.3 NC_006548.1 + 13576 0.68 0.4874
Target:  5'- gGCGGCGGCaAGCUGCUgcucaaccagauccAGaaaaGCCUGgAUUc -3'
miRNA:   3'- -CGCCGUCG-UUGACGA--------------UC----UGGACgUAG- -5'
30557 3' -54.3 NC_006548.1 + 2794 0.68 0.501506
Target:  5'- cCGGCAGCGugcuugccCUGCgccGCCUGCAgaUCg -3'
miRNA:   3'- cGCCGUCGUu-------GACGaucUGGACGU--AG- -5'
30557 3' -54.3 NC_006548.1 + 22916 0.68 0.501506
Target:  5'- cGCGGCGGCGA--GUUGGGCCggacUAUCg -3'
miRNA:   3'- -CGCCGUCGUUgaCGAUCUGGac--GUAG- -5'
30557 3' -54.3 NC_006548.1 + 16343 0.68 0.512478
Target:  5'- cGUGGCGGCAAC-----GACCUGCGg- -3'
miRNA:   3'- -CGCCGUCGUUGacgauCUGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 7768 0.67 0.544821
Target:  5'- cGCGGCAGCucaugcGCUcgaugucgucuagGUcgAGGCCUGCAa- -3'
miRNA:   3'- -CGCCGUCGu-----UGA-------------CGa-UCUGGACGUag -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.