miRNA display CGI


Results 1 - 20 of 60 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
15917 3' -55.7 NC_004065.1 + 18330 1.08 0.005642
Target:  5'- uCCGAGGAGAUGGUAGCGGCCUCGAAAg -3'
miRNA:   3'- -GGCUCCUCUACCAUCGCCGGAGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 38220 0.67 0.942667
Target:  5'- cCCGGGGGGGUGGgaucccucCGGCUugucguUCGAAc -3'
miRNA:   3'- -GGCUCCUCUACCauc-----GCCGG------AGCUUu -5'
15917 3' -55.7 NC_004065.1 + 132154 0.66 0.951131
Target:  5'- gCCGAgccuGGAcGUGGUGGCGGCgauggCGGAc -3'
miRNA:   3'- -GGCU----CCUcUACCAUCGCCGga---GCUUu -5'
15917 3' -55.7 NC_004065.1 + 136254 0.66 0.96545
Target:  5'- aCCG-GGAGcgGGgcGCuGGUCUgGGGAg -3'
miRNA:   3'- -GGCuCCUCuaCCauCG-CCGGAgCUUU- -5'
15917 3' -55.7 NC_004065.1 + 105240 0.73 0.68831
Target:  5'- aCGAGGAGAUGGUGGC-GCa--GAAGg -3'
miRNA:   3'- gGCUCCUCUACCAUCGcCGgagCUUU- -5'
15917 3' -55.7 NC_004065.1 + 136575 0.72 0.717704
Target:  5'- gCCGGGGAGcUGGUccuGCGGUC-CGggGa -3'
miRNA:   3'- -GGCUCCUCuACCAu--CGCCGGaGCuuU- -5'
15917 3' -55.7 NC_004065.1 + 102598 0.71 0.778015
Target:  5'- aUCGAGGAGAUgugcuccucgucgacGGUGaCGGCCUgGGAGa -3'
miRNA:   3'- -GGCUCCUCUA---------------CCAUcGCCGGAgCUUU- -5'
15917 3' -55.7 NC_004065.1 + 154332 0.7 0.809841
Target:  5'- aCGcAGGAGGUGGgggcGCGGCCaaGAAu -3'
miRNA:   3'- gGC-UCCUCUACCau--CGCCGGagCUUu -5'
15917 3' -55.7 NC_004065.1 + 170362 0.69 0.850664
Target:  5'- aCGAGGAcGA-GGUGGCGuGCUcCGAGAc -3'
miRNA:   3'- gGCUCCU-CUaCCAUCGC-CGGaGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 185451 0.67 0.933304
Target:  5'- aCGAGGAGugaugaugaagGUGGUGGUGGUgcgggUCGGGAg -3'
miRNA:   3'- gGCUCCUC-----------UACCAUCGCCGg----AGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 130852 0.68 0.886778
Target:  5'- gCGAGGAGGugcagcagcagcUGGaGGCGGCCaCGGu- -3'
miRNA:   3'- gGCUCCUCU------------ACCaUCGCCGGaGCUuu -5'
15917 3' -55.7 NC_004065.1 + 136409 0.7 0.842851
Target:  5'- gCCGGGGAGcUGGUccuGGgGGCC-CGGu- -3'
miRNA:   3'- -GGCUCCUCuACCA---UCgCCGGaGCUuu -5'
15917 3' -55.7 NC_004065.1 + 43864 0.77 0.464115
Target:  5'- gCCGuGGAGuucGGUGGCGGCCUCc--- -3'
miRNA:   3'- -GGCuCCUCua-CCAUCGCCGGAGcuuu -5'
15917 3' -55.7 NC_004065.1 + 75780 0.68 0.90591
Target:  5'- aCG-GGAGucgaGGUcucacGGCGGCCUCGGc- -3'
miRNA:   3'- gGCuCCUCua--CCA-----UCGCCGGAGCUuu -5'
15917 3' -55.7 NC_004065.1 + 127536 0.74 0.618539
Target:  5'- -aGAGGAGAUGGUaguAGUGGCCgcguaGGAGg -3'
miRNA:   3'- ggCUCCUCUACCA---UCGCCGGag---CUUU- -5'
15917 3' -55.7 NC_004065.1 + 127473 0.7 0.834855
Target:  5'- cCCGGGGAGGUGGUcgGGC-GCggCGGGAg -3'
miRNA:   3'- -GGCUCCUCUACCA--UCGcCGgaGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 78270 0.68 0.90591
Target:  5'- cCCGAuucugcgugcGGuGGUcGUAGCGGCuCUCGAGGg -3'
miRNA:   3'- -GGCU----------CCuCUAcCAUCGCCG-GAGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 68536 0.66 0.951131
Target:  5'- gCCGAGGAGgcGGcGGCGGaggugacggcguCC-CGAAGg -3'
miRNA:   3'- -GGCUCCUCuaCCaUCGCC------------GGaGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 190758 0.73 0.638537
Target:  5'- uCUGAuGGGGAcGGUGGCGGCCUgGuAAAa -3'
miRNA:   3'- -GGCU-CCUCUaCCAUCGCCGGAgC-UUU- -5'
15917 3' -55.7 NC_004065.1 + 53647 0.71 0.765181
Target:  5'- gCGAGcAGAUGGUGGCG-CCUCGu-- -3'
miRNA:   3'- gGCUCcUCUACCAUCGCcGGAGCuuu -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.