miRNA display CGI


Results 1 - 15 of 15 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
28565 3' -57.2 NC_005946.1 + 14651 0.66 0.807306
Target:  5'- -uGGCUCAgccggGGGGAGG-CCgacaagggcacccugCUGGACGc -3'
miRNA:   3'- gcUCGAGUa----CUCCUCCaGG---------------GACCUGC- -5'
28565 3' -57.2 NC_005946.1 + 95356 0.66 0.794647
Target:  5'- gGGGCUUcgGGGGAGGcagguUCCCcccGaGGCGa -3'
miRNA:   3'- gCUCGAGuaCUCCUCC-----AGGGa--C-CUGC- -5'
28565 3' -57.2 NC_005946.1 + 27420 0.66 0.766562
Target:  5'- -aGGCUCcUGAGGucGGUgCCCUGGuuGg -3'
miRNA:   3'- gcUCGAGuACUCCu-CCA-GGGACCugC- -5'
28565 3' -57.2 NC_005946.1 + 37227 0.67 0.736388
Target:  5'- ----gUCGUGGGGcuugacaugcaccAGGUCCCUgGGACGg -3'
miRNA:   3'- gcucgAGUACUCC-------------UCCAGGGA-CCUGC- -5'
28565 3' -57.2 NC_005946.1 + 81676 0.67 0.727448
Target:  5'- aGAGUUUucUGAGaaAGG-CCCUGGACGa -3'
miRNA:   3'- gCUCGAGu-ACUCc-UCCaGGGACCUGC- -5'
28565 3' -57.2 NC_005946.1 + 22803 0.69 0.613687
Target:  5'- --uGCUCA-GAGGAgaacccgucaccgGGUUCCUGGugGg -3'
miRNA:   3'- gcuCGAGUaCUCCU-------------CCAGGGACCugC- -5'
28565 3' -57.2 NC_005946.1 + 14569 0.7 0.583786
Target:  5'- aCGuuGC-CAUGAGGAGGgccgUCCaGGACGa -3'
miRNA:   3'- -GCu-CGaGUACUCCUCCa---GGGaCCUGC- -5'
28565 3' -57.2 NC_005946.1 + 25617 0.7 0.583786
Target:  5'- -aAGCUCcucaccagGAGGcuGUCCCUGGACa -3'
miRNA:   3'- gcUCGAGua------CUCCucCAGGGACCUGc -5'
28565 3' -57.2 NC_005946.1 + 41434 0.7 0.533026
Target:  5'- aCGGGUcCGUGAGGuccgcgGGGUCCCggcGGACc -3'
miRNA:   3'- -GCUCGaGUACUCC------UCCAGGGa--CCUGc -5'
28565 3' -57.2 NC_005946.1 + 47732 0.71 0.513149
Target:  5'- aGGGUcacUCAcGAGGAGGUCCgUgaGGACGu -3'
miRNA:   3'- gCUCG---AGUaCUCCUCCAGGgA--CCUGC- -5'
28565 3' -57.2 NC_005946.1 + 86522 0.73 0.41912
Target:  5'- aGGGUUCcaGGGaGAGGUUCCUGGACu -3'
miRNA:   3'- gCUCGAGuaCUC-CUCCAGGGACCUGc -5'
28565 3' -57.2 NC_005946.1 + 72569 0.73 0.410296
Target:  5'- -aGGUUCGUGAGGAGGguaCUGGACc -3'
miRNA:   3'- gcUCGAGUACUCCUCCaggGACCUGc -5'
28565 3' -57.2 NC_005946.1 + 102151 0.73 0.375355
Target:  5'- uGAGCUCGUagucguccGAGGugacccuGGuGUCCCUGGACa -3'
miRNA:   3'- gCUCGAGUA--------CUCC-------UC-CAGGGACCUGc -5'
28565 3' -57.2 NC_005946.1 + 2313 0.75 0.29266
Target:  5'- gGAGCUCGUGAGcaGGGuGUCCUcGGACGc -3'
miRNA:   3'- gCUCGAGUACUC--CUC-CAGGGaCCUGC- -5'
28565 3' -57.2 NC_005946.1 + 71828 0.78 0.193112
Target:  5'- aGAGgaCggGAGGAGGUCCCgcgGGACu -3'
miRNA:   3'- gCUCgaGuaCUCCUCCAGGGa--CCUGc -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.