miRNA display CGI


Results 1 - 20 of 63 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
25552 5' -57.3 NC_005337.1 + 66565 0.66 0.848639
Target:  5'- gGAGGACGACGgguccgagauagacgCccaggagacGGCCUGGUGGcugACGg -3'
miRNA:   3'- gUUCCUGCUGCa--------------G---------UCGGACCGCC---UGU- -5'
25552 5' -57.3 NC_005337.1 + 11019 0.66 0.847844
Target:  5'- cCGAGGGCucCGUgaugaacaugUGGCC-GGCGGGCAg -3'
miRNA:   3'- -GUUCCUGcuGCA----------GUCGGaCCGCCUGU- -5'
25552 5' -57.3 NC_005337.1 + 88282 0.66 0.839783
Target:  5'- --cGGAC-AUGUCGGUggaGGCGGACAu -3'
miRNA:   3'- guuCCUGcUGCAGUCGga-CCGCCUGU- -5'
25552 5' -57.3 NC_005337.1 + 93275 0.66 0.839783
Target:  5'- gCGAGGcCGgggguGCGUCGgcGCCUGGUGG-CGg -3'
miRNA:   3'- -GUUCCuGC-----UGCAGU--CGGACCGCCuGU- -5'
25552 5' -57.3 NC_005337.1 + 100747 0.66 0.831535
Target:  5'- -cGGcGACGACGcgugCAGCCggcgcacGGCGGAg- -3'
miRNA:   3'- guUC-CUGCUGCa---GUCGGa------CCGCCUgu -5'
25552 5' -57.3 NC_005337.1 + 53038 0.66 0.823104
Target:  5'- -cGGGAgcugcCGGCGcaaCGGCCUGGUcucGGACAc -3'
miRNA:   3'- guUCCU-----GCUGCa--GUCGGACCG---CCUGU- -5'
25552 5' -57.3 NC_005337.1 + 7147 0.66 0.823104
Target:  5'- --cGGACGAUGUCcGCCU--CGGACc -3'
miRNA:   3'- guuCCUGCUGCAGuCGGAccGCCUGu -5'
25552 5' -57.3 NC_005337.1 + 852 0.66 0.819683
Target:  5'- gAAGG-CGGCGggcagcgcgggcgCGGCCgGGCGGAa- -3'
miRNA:   3'- gUUCCuGCUGCa------------GUCGGaCCGCCUgu -5'
25552 5' -57.3 NC_005337.1 + 852 0.66 0.819683
Target:  5'- gAAGG-CGGCGggcagcgcgggcgCGGCCgGGCGGAa- -3'
miRNA:   3'- gUUCCuGCUGCa------------GUCGGaCCGCCUgu -5'
25552 5' -57.3 NC_005337.1 + 54183 0.66 0.817962
Target:  5'- cCAGGGAauaaaugaauaacucCGugGUgAGCCUcGUGGGCGc -3'
miRNA:   3'- -GUUCCU---------------GCugCAgUCGGAcCGCCUGU- -5'
25552 5' -57.3 NC_005337.1 + 84077 0.66 0.817962
Target:  5'- -cAGGGCGGCGgagccagaggguugCGGCCguccGGaCGGGCGa -3'
miRNA:   3'- guUCCUGCUGCa-------------GUCGGa---CC-GCCUGU- -5'
25552 5' -57.3 NC_005337.1 + 9798 0.66 0.814501
Target:  5'- -cAGGGCGGCGUUcaccauGUCcagGGCGGAUg -3'
miRNA:   3'- guUCCUGCUGCAGu-----CGGa--CCGCCUGu -5'
25552 5' -57.3 NC_005337.1 + 69026 0.66 0.814501
Target:  5'- gAAGGACucCGUCuccgaggcgAGCCgcagGGCGGugGc -3'
miRNA:   3'- gUUCCUGcuGCAG---------UCGGa---CCGCCugU- -5'
25552 5' -57.3 NC_005337.1 + 44112 0.66 0.813631
Target:  5'- gCAGGGAucagcguCGGCGUCgAGuCCgugcGGCGGAUg -3'
miRNA:   3'- -GUUCCU-------GCUGCAG-UC-GGa---CCGCCUGu -5'
25552 5' -57.3 NC_005337.1 + 50397 0.67 0.805732
Target:  5'- gCGGGGGCGcgccgcGCGUCGGUgaCggagcGGCGGGCGc -3'
miRNA:   3'- -GUUCCUGC------UGCAGUCG--Ga----CCGCCUGU- -5'
25552 5' -57.3 NC_005337.1 + 47881 0.67 0.796806
Target:  5'- --cGGACGcGCG-CAgccGCCUGGCGG-CAu -3'
miRNA:   3'- guuCCUGC-UGCaGU---CGGACCGCCuGU- -5'
25552 5' -57.3 NC_005337.1 + 42126 0.67 0.796806
Target:  5'- aCGAGGACGGCGcUGGCCc-GCGGcGCGu -3'
miRNA:   3'- -GUUCCUGCUGCaGUCGGacCGCC-UGU- -5'
25552 5' -57.3 NC_005337.1 + 41207 0.67 0.787732
Target:  5'- aGAGGuCGGCGcUUAGCCc-GCGGACc -3'
miRNA:   3'- gUUCCuGCUGC-AGUCGGacCGCCUGu -5'
25552 5' -57.3 NC_005337.1 + 20960 0.67 0.787732
Target:  5'- uCAAGGGCGGC-UC-GUC-GGCGGACc -3'
miRNA:   3'- -GUUCCUGCUGcAGuCGGaCCGCCUGu -5'
25552 5' -57.3 NC_005337.1 + 13902 0.67 0.786817
Target:  5'- aCGGGGACcaGCGUCaucgucgGGUCgugGGCGGGCGc -3'
miRNA:   3'- -GUUCCUGc-UGCAG-------UCGGa--CCGCCUGU- -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.