miRNA display CGI


Results 1 - 20 of 29 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
28129 5' -54.5 NC_005887.1 + 22941 0.66 0.672122
Target:  5'- cGGaCCGGua-UCGCGGACCgauacgcucugcggcAGCUGCg -3'
miRNA:   3'- -UCgGGCCuuaAGUGCUUGG---------------UCGACGa -5'
28129 5' -54.5 NC_005887.1 + 11458 0.66 0.667589
Target:  5'- cGGCgCCGGccgccaGCGcuCCGGCUGCg -3'
miRNA:   3'- -UCG-GGCCuuaag-UGCuuGGUCGACGa -5'
28129 5' -54.5 NC_005887.1 + 36551 0.66 0.667589
Target:  5'- cGGuUCCGGugaUCGCGAACCucGUUGCa -3'
miRNA:   3'- -UC-GGGCCuuaAGUGCUUGGu-CGACGa -5'
28129 5' -54.5 NC_005887.1 + 38258 0.66 0.656233
Target:  5'- uGGCUCGGGuau--UGAGCCGGCcaUGCUg -3'
miRNA:   3'- -UCGGGCCUuaaguGCUUGGUCG--ACGA- -5'
28129 5' -54.5 NC_005887.1 + 15717 0.66 0.656233
Target:  5'- cGCCggcgugaaGGAGcUgACGcGCCAGCUGCa -3'
miRNA:   3'- uCGGg-------CCUUaAgUGCuUGGUCGACGa -5'
28129 5' -54.5 NC_005887.1 + 28867 0.66 0.656233
Target:  5'- uGCUgaUGGAuUUCGCGAaaGCCgcgaAGCUGCUu -3'
miRNA:   3'- uCGG--GCCUuAAGUGCU--UGG----UCGACGA- -5'
28129 5' -54.5 NC_005887.1 + 35010 0.66 0.656233
Target:  5'- cGCCCGccGAGUUCGa-AGCCGGCgacgGCa -3'
miRNA:   3'- uCGGGC--CUUAAGUgcUUGGUCGa---CGa -5'
28129 5' -54.5 NC_005887.1 + 18251 0.66 0.644853
Target:  5'- cGCCgGGcaccgUCACGGGCgAGCUGa- -3'
miRNA:   3'- uCGGgCCuua--AGUGCUUGgUCGACga -5'
28129 5' -54.5 NC_005887.1 + 4520 0.67 0.587984
Target:  5'- cAGCCgGGucgaacuGCGAgacgauGCCGGCUGCUg -3'
miRNA:   3'- -UCGGgCCuuaag--UGCU------UGGUCGACGA- -5'
28129 5' -54.5 NC_005887.1 + 1689 0.67 0.587984
Target:  5'- cGCCCcGAg--CACGAGCgcaAGCUGCg -3'
miRNA:   3'- uCGGGcCUuaaGUGCUUGg--UCGACGa -5'
28129 5' -54.5 NC_005887.1 + 2570 0.67 0.576689
Target:  5'- cAGUCCGGGug-CACGAGCaGGCcggGCUc -3'
miRNA:   3'- -UCGGGCCUuaaGUGCUUGgUCGa--CGA- -5'
28129 5' -54.5 NC_005887.1 + 9909 0.67 0.576689
Target:  5'- cGCgCGGcGUUCAgGuuggccgcgcuGACCGGCUGCg -3'
miRNA:   3'- uCGgGCCuUAAGUgC-----------UUGGUCGACGa -5'
28129 5' -54.5 NC_005887.1 + 17172 0.67 0.576689
Target:  5'- aGGCgUGGGAgcgCGCGAACgCGGCcGCa -3'
miRNA:   3'- -UCGgGCCUUaa-GUGCUUG-GUCGaCGa -5'
28129 5' -54.5 NC_005887.1 + 21361 0.67 0.565444
Target:  5'- uGCCCGuGAAUguggGCGAcGCCAGCaGCg -3'
miRNA:   3'- uCGGGC-CUUAag--UGCU-UGGUCGaCGa -5'
28129 5' -54.5 NC_005887.1 + 31734 0.68 0.557606
Target:  5'- cGGCCCGGcuaacggcuucuggCGCGAugcugACUGGCUGCUc -3'
miRNA:   3'- -UCGGGCCuuaa----------GUGCU-----UGGUCGACGA- -5'
28129 5' -54.5 NC_005887.1 + 35364 0.68 0.543134
Target:  5'- cGCCCGGcaccaCGCGGGCCuGCaGCa -3'
miRNA:   3'- uCGGGCCuuaa-GUGCUUGGuCGaCGa -5'
28129 5' -54.5 NC_005887.1 + 21534 0.68 0.543134
Target:  5'- uGCCgGGaAAUUCACGAcgcugcaggcgACCGGC-GCa -3'
miRNA:   3'- uCGGgCC-UUAAGUGCU-----------UGGUCGaCGa -5'
28129 5' -54.5 NC_005887.1 + 25097 0.68 0.532087
Target:  5'- cGCCguCGGAuUUCGCGA-CCGGUUGUc -3'
miRNA:   3'- uCGG--GCCUuAAGUGCUuGGUCGACGa -5'
28129 5' -54.5 NC_005887.1 + 13368 0.68 0.521122
Target:  5'- gAGCCCGGcGAUggcgcUCGCGcugaaGGCCGGCgcgGCg -3'
miRNA:   3'- -UCGGGCC-UUA-----AGUGC-----UUGGUCGa--CGa -5'
28129 5' -54.5 NC_005887.1 + 18451 0.68 0.521122
Target:  5'- aGGCCaucGggUUCGCGAgcGCCGGC-GCg -3'
miRNA:   3'- -UCGGgc-CuuAAGUGCU--UGGUCGaCGa -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.