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 + 136254 0.66 0.96545
Target:  5'- aCCG-GGAGcgGGgcGCuGGUCUgGGGAg -3'
miRNA:   3'- -GGCuCCUCuaCCauCG-CCGGAgCUUU- -5'
15917 3' -55.7 NC_004065.1 + 36478 0.66 0.96545
Target:  5'- aCCGAGG-GAUGGaucgGGaUGGCCcggcgCGGAGa -3'
miRNA:   3'- -GGCUCCuCUACCa---UC-GCCGGa----GCUUU- -5'
15917 3' -55.7 NC_004065.1 + 55762 0.66 0.96545
Target:  5'- uCCGAGuGGAaGaUGGCGGUCUCGGc- -3'
miRNA:   3'- -GGCUCcUCUaCcAUCGCCGGAGCUuu -5'
15917 3' -55.7 NC_004065.1 + 204093 0.66 0.96545
Target:  5'- uCCGAGGAGGacgUGGUuucCGaGaCCUCGAu- -3'
miRNA:   3'- -GGCUCCUCU---ACCAuc-GC-C-GGAGCUuu -5'
15917 3' -55.7 NC_004065.1 + 75478 0.66 0.96545
Target:  5'- aCGAGGGcGAUGGcGGCGGCga-GGAu -3'
miRNA:   3'- gGCUCCU-CUACCaUCGCCGgagCUUu -5'
15917 3' -55.7 NC_004065.1 + 28993 0.66 0.963517
Target:  5'- uCCGGcGGcGGUGGcGaggcgccgcgcgcacGCGGCCUCGAGu -3'
miRNA:   3'- -GGCU-CCuCUACCaU---------------CGCCGGAGCUUu -5'
15917 3' -55.7 NC_004065.1 + 72499 0.66 0.962187
Target:  5'- aCCGGGGAGAaGGUGGaaCGGCaggUGGu- -3'
miRNA:   3'- -GGCUCCUCUaCCAUC--GCCGga-GCUuu -5'
15917 3' -55.7 NC_004065.1 + 75887 0.66 0.962187
Target:  5'- gCGcAGGAGGgccUGGUAcuCGGCCUCGu-- -3'
miRNA:   3'- gGC-UCCUCU---ACCAUc-GCCGGAGCuuu -5'
15917 3' -55.7 NC_004065.1 + 224043 0.66 0.962187
Target:  5'- cCCGAGGGccauGAcGGccGGUGGCCgCGAGAa -3'
miRNA:   3'- -GGCUCCU----CUaCCa-UCGCCGGaGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 115583 0.66 0.962187
Target:  5'- aCGGcGGuGGUGGUGGCGGCgg-GAGAu -3'
miRNA:   3'- gGCU-CCuCUACCAUCGCCGgagCUUU- -5'
15917 3' -55.7 NC_004065.1 + 38544 0.66 0.962187
Target:  5'- cCUGGGGGGAcacgcgugcgUGGUGGUgccgcaccucGGCgUCGAGGa -3'
miRNA:   3'- -GGCUCCUCU----------ACCAUCG----------CCGgAGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 205430 0.66 0.958716
Target:  5'- aCCGGcGGcGgcGGUGGCGGCgaCGAc- -3'
miRNA:   3'- -GGCU-CCuCuaCCAUCGCCGgaGCUuu -5'
15917 3' -55.7 NC_004065.1 + 59757 0.66 0.958716
Target:  5'- aCCGcguGGccGAUGGUGGCGGCggCGGc- -3'
miRNA:   3'- -GGCu--CCu-CUACCAUCGCCGgaGCUuu -5'
15917 3' -55.7 NC_004065.1 + 115054 0.66 0.958357
Target:  5'- gCCGAGGGcaacggcgcgcgcGA-GGacGCGGCCUCGGu- -3'
miRNA:   3'- -GGCUCCU-------------CUaCCauCGCCGGAGCUuu -5'
15917 3' -55.7 NC_004065.1 + 119299 0.66 0.955032
Target:  5'- uCCGAGcAGGUcuucgggucgagGGUGGCGGCuCUCGc-- -3'
miRNA:   3'- -GGCUCcUCUA------------CCAUCGCCG-GAGCuuu -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 + 68536 0.66 0.951131
Target:  5'- gCCGAGGAGgcGGcGGCGGaggugacggcguCC-CGAAGg -3'
miRNA:   3'- -GGCUCCUCuaCCaUCGCC------------GGaGCUUU- -5'
15917 3' -55.7 NC_004065.1 + 96259 0.66 0.951131
Target:  5'- gUCGAGGAugcgGAUGGacggcggGGCGGCCagGGGc -3'
miRNA:   3'- -GGCUCCU----CUACCa------UCGCCGGagCUUu -5'
15917 3' -55.7 NC_004065.1 + 23488 0.66 0.948686
Target:  5'- aCCGAuaGGGGAcacguucaagccggGGUAGCG-CCUCGAu- -3'
miRNA:   3'- -GGCU--CCUCUa-------------CCAUCGCcGGAGCUuu -5'
15917 3' -55.7 NC_004065.1 + 88917 0.66 0.947011
Target:  5'- gCUGAcGGAGAcGaGcgAGCGGCCgUCGAAGa -3'
miRNA:   3'- -GGCU-CCUCUaC-Ca-UCGCCGG-AGCUUU- -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.