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 + 31432 0.66 0.637804
Target:  5'- aCGGCGGCcuauCUGC---ACCUGCAcgUCg -3'
miRNA:   3'- cGCCGUCGuu--GACGaucUGGACGU--AG- -5'
30557 3' -54.3 NC_006548.1 + 20690 0.66 0.637804
Target:  5'- aGCGcG-AGCAACUGCUGGccACCcGCGa- -3'
miRNA:   3'- -CGC-CgUCGUUGACGAUC--UGGaCGUag -5'
30557 3' -54.3 NC_006548.1 + 28563 0.66 0.637804
Target:  5'- cGCuGGUccuGCcAUUGCUGGAUCUGCGc- -3'
miRNA:   3'- -CG-CCGu--CGuUGACGAUCUGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 9577 0.66 0.600796
Target:  5'- cGCGcaccagaGCAGCcuccuGCUGgUGGACCgaaccguUGCAUCa -3'
miRNA:   3'- -CGC-------CGUCGu----UGACgAUCUGG-------ACGUAG- -5'
30557 3' -54.3 NC_006548.1 + 28077 0.66 0.591578
Target:  5'- gGCGGCuGGCGGcCUGCaGGccgaacucaaccGCCUGCAg- -3'
miRNA:   3'- -CGCCG-UCGUU-GACGaUC------------UGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 29355 0.66 0.590427
Target:  5'- cGCGGUcucgccgauGGCAcccugucGCUGCaggAGGCCgcgGUAUCg -3'
miRNA:   3'- -CGCCG---------UCGU-------UGACGa--UCUGGa--CGUAG- -5'
30557 3' -54.3 NC_006548.1 + 20595 0.67 0.56865
Target:  5'- aGCGGCAGaGGCUGaCcGGACCUcucacaCAUCa -3'
miRNA:   3'- -CGCCGUCgUUGAC-GaUCUGGAc-----GUAG- -5'
30557 3' -54.3 NC_006548.1 + 22753 0.67 0.566368
Target:  5'- aUGGCAGCGacgaGCUGCUcGAUCgccagcguggcgGCGUCc -3'
miRNA:   3'- cGCCGUCGU----UGACGAuCUGGa-----------CGUAG- -5'
30557 3' -54.3 NC_006548.1 + 17534 0.67 0.557266
Target:  5'- aGCaGGCaAGCAGCuUGgaAGAUCUGCGc- -3'
miRNA:   3'- -CG-CCG-UCGUUG-ACgaUCUGGACGUag -5'
30557 3' -54.3 NC_006548.1 + 7768 0.67 0.544821
Target:  5'- cGCGGCAGCucaugcGCUcgaugucgucuagGUcgAGGCCUGCAa- -3'
miRNA:   3'- -CGCCGUCGu-----UGA-------------CGa-UCUGGACGUag -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 + 22916 0.68 0.501506
Target:  5'- cGCGGCGGCGA--GUUGGGCCggacUAUCg -3'
miRNA:   3'- -CGCCGUCGUUgaCGAUCUGGac--GUAG- -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 + 13576 0.68 0.4874
Target:  5'- gGCGGCGGCaAGCUGCUgcucaaccagauccAGaaaaGCCUGgAUUc -3'
miRNA:   3'- -CGCCGUCG-UUGACGA--------------UC----UGGACgUAG- -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 + 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 + 37841 0.69 0.438074
Target:  5'- gGUGGCuGCuccgAACgugGCUGGugCUGCAaaUCa -3'
miRNA:   3'- -CGCCGuCG----UUGa--CGAUCugGACGU--AG- -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 + 13210 0.71 0.352232
Target:  5'- uCGGuCAGUuGCUGCUGuACCUGCAg- -3'
miRNA:   3'- cGCC-GUCGuUGACGAUcUGGACGUag -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.