miRNA display CGI


Results 1 - 20 of 20 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
13133 3' -51.9 NC_003401.1 + 126510 0.66 0.97931
Target:  5'- uGGGUGGCGCUGAUcaguucuuccGACaGGcACGGGGu -3'
miRNA:   3'- uUCCGCUGCGACUAu---------UUG-CC-UGUCUC- -5'
13133 3' -51.9 NC_003401.1 + 59435 0.66 0.976873
Target:  5'- -uGGCGAUuaUGuacGUAAACGGGCcuaAGAGa -3'
miRNA:   3'- uuCCGCUGcgAC---UAUUUGCCUG---UCUC- -5'
13133 3' -51.9 NC_003401.1 + 10912 0.66 0.974231
Target:  5'- gGAGGCG-CGCUGccgcuCGGAuCAGAu -3'
miRNA:   3'- -UUCCGCuGCGACuauuuGCCU-GUCUc -5'
13133 3' -51.9 NC_003401.1 + 67325 0.66 0.971376
Target:  5'- gGGGGCGugGCUuggGGUAGGgGuGACAGu- -3'
miRNA:   3'- -UUCCGCugCGA---CUAUUUgC-CUGUCuc -5'
13133 3' -51.9 NC_003401.1 + 80116 0.67 0.964997
Target:  5'- aAGGGCGcCGacg--AGGCGGGCAGGGu -3'
miRNA:   3'- -UUCCGCuGCgacuaUUUGCCUGUCUC- -5'
13133 3' -51.9 NC_003401.1 + 127841 0.67 0.961459
Target:  5'- -uGGUGGCGCUG-UGGACGGuuuuaAGAa -3'
miRNA:   3'- uuCCGCUGCGACuAUUUGCCug---UCUc -5'
13133 3' -51.9 NC_003401.1 + 39220 0.67 0.953658
Target:  5'- cGGGGCGuuCGCUGccaccGUAGcaggacacGCGGGCAGAa -3'
miRNA:   3'- -UUCCGCu-GCGAC-----UAUU--------UGCCUGUCUc -5'
13133 3' -51.9 NC_003401.1 + 27068 0.67 0.949384
Target:  5'- cAAGG-GAUGCUGcaaAUAAacACGGACGGAc -3'
miRNA:   3'- -UUCCgCUGCGAC---UAUU--UGCCUGUCUc -5'
13133 3' -51.9 NC_003401.1 + 41506 0.68 0.944856
Target:  5'- uAGGCGACGaggGGUAcgaAACGGAaaaugaCAGGGa -3'
miRNA:   3'- uUCCGCUGCga-CUAU---UUGCCU------GUCUC- -5'
13133 3' -51.9 NC_003401.1 + 118386 0.68 0.929718
Target:  5'- -cGGCGACGCUGAc--GCcGGCGGGu -3'
miRNA:   3'- uuCCGCUGCGACUauuUGcCUGUCUc -5'
13133 3' -51.9 NC_003401.1 + 100718 0.68 0.929718
Target:  5'- -cGGCGACGCUauccGGUuuACGGggcGCGGAa -3'
miRNA:   3'- uuCCGCUGCGA----CUAuuUGCC---UGUCUc -5'
13133 3' -51.9 NC_003401.1 + 30895 0.68 0.929718
Target:  5'- cGAGGCGGCuGUUGAgauuACGG-CAGAc -3'
miRNA:   3'- -UUCCGCUG-CGACUauu-UGCCuGUCUc -5'
13133 3' -51.9 NC_003401.1 + 132771 0.7 0.862487
Target:  5'- cGGGGCGGCGUggggGAggggAGGCcGGCGGAGg -3'
miRNA:   3'- -UUCCGCUGCGa---CUa---UUUGcCUGUCUC- -5'
13133 3' -51.9 NC_003401.1 + 84014 0.7 0.862487
Target:  5'- cGGGCGuACGCUGAUcucguCGGAgGGAc -3'
miRNA:   3'- uUCCGC-UGCGACUAuuu--GCCUgUCUc -5'
13133 3' -51.9 NC_003401.1 + 17894 0.71 0.825405
Target:  5'- uGGGGCGACGuCUGAgacgccucgccggAGACGcGCAGGGg -3'
miRNA:   3'- -UUCCGCUGC-GACUa------------UUUGCcUGUCUC- -5'
13133 3' -51.9 NC_003401.1 + 8897 0.72 0.772933
Target:  5'- -cGGCGACcgGCUGAcgcgccgucgucUGGACGGugAGGGc -3'
miRNA:   3'- uuCCGCUG--CGACU------------AUUUGCCugUCUC- -5'
13133 3' -51.9 NC_003401.1 + 92584 0.72 0.760068
Target:  5'- -uGGCGcCGCUGAUGguauauucugacauGACGGAC-GAGg -3'
miRNA:   3'- uuCCGCuGCGACUAU--------------UUGCCUGuCUC- -5'
13133 3' -51.9 NC_003401.1 + 72545 0.73 0.732704
Target:  5'- aGAGGCGGaauCGCUGccagcGCGGACGGGGc -3'
miRNA:   3'- -UUCCGCU---GCGACuauu-UGCCUGUCUC- -5'
13133 3' -51.9 NC_003401.1 + 6854 0.75 0.626888
Target:  5'- uGGGCGAUGCUGGUAaaGAgGGAgucgUAGAGg -3'
miRNA:   3'- uUCCGCUGCGACUAU--UUgCCU----GUCUC- -5'
13133 3' -51.9 NC_003401.1 + 64734 1.07 0.007137
Target:  5'- cAAGGCGACGCUGAUAAACGGACAGAGa -3'
miRNA:   3'- -UUCCGCUGCGACUAUUUGCCUGUCUC- -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.