miRNA display CGI


Results 1 - 20 of 42 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
12928 3' -59.7 NC_003387.1 + 37911 0.66 0.437444
Target:  5'- cGACCCGCUgcccggugGCUCgGCaCCGcCGGGCAc-- -3'
miRNA:   3'- -CUGGGCGA--------CGAG-UG-GGC-GCUCGUuca -5'
12928 3' -59.7 NC_003387.1 + 15655 0.66 0.437444
Target:  5'- aACCCGCUGCUgGCgUUGCccacGCAGGUg -3'
miRNA:   3'- cUGGGCGACGAgUG-GGCGcu--CGUUCA- -5'
12928 3' -59.7 NC_003387.1 + 36685 0.66 0.437444
Target:  5'- --gCCGC-GUUCA-CCGCGGGCAAGc -3'
miRNA:   3'- cugGGCGaCGAGUgGGCGCUCGUUCa -5'
12928 3' -59.7 NC_003387.1 + 32451 0.66 0.437444
Target:  5'- cGGCCCGCagUGCcuagCGCCaUGCGGGCGu-- -3'
miRNA:   3'- -CUGGGCG--ACGa---GUGG-GCGCUCGUuca -5'
12928 3' -59.7 NC_003387.1 + 21855 0.66 0.437444
Target:  5'- -cCCCGCUaccgcaacaGUUCACggCCGCGGGCAAc- -3'
miRNA:   3'- cuGGGCGA---------CGAGUG--GGCGCUCGUUca -5'
12928 3' -59.7 NC_003387.1 + 44465 0.66 0.427967
Target:  5'- cGAggCGCUGCaCGCCCGCGuGaCGGGUg -3'
miRNA:   3'- -CUggGCGACGaGUGGGCGCuC-GUUCA- -5'
12928 3' -59.7 NC_003387.1 + 32510 0.66 0.418612
Target:  5'- cGACugCCGCUGCgugcaCGCCCGgcCGuGCGAGg -3'
miRNA:   3'- -CUG--GGCGACGa----GUGGGC--GCuCGUUCa -5'
12928 3' -59.7 NC_003387.1 + 47640 0.66 0.418612
Target:  5'- uGGCCCGCgacuaGCggGCCU-CGGGCAGGUa -3'
miRNA:   3'- -CUGGGCGa----CGagUGGGcGCUCGUUCA- -5'
12928 3' -59.7 NC_003387.1 + 51348 0.66 0.418612
Target:  5'- cGACCCGCUGa--GCgCCGaCG-GCGAGg -3'
miRNA:   3'- -CUGGGCGACgagUG-GGC-GCuCGUUCa -5'
12928 3' -59.7 NC_003387.1 + 17581 0.66 0.415829
Target:  5'- -cCCCGCUGgUCgACCUGCaguggccgccgcuuGAGCAGGc -3'
miRNA:   3'- cuGGGCGACgAG-UGGGCG--------------CUCGUUCa -5'
12928 3' -59.7 NC_003387.1 + 47462 0.67 0.40028
Target:  5'- cGCCUGCagGUaCGCCCGCacagcGGGCGAGUu -3'
miRNA:   3'- cUGGGCGa-CGaGUGGGCG-----CUCGUUCA- -5'
12928 3' -59.7 NC_003387.1 + 6426 0.67 0.40028
Target:  5'- cGGCCCGCUGCgcCGCCUGCucGGCc--- -3'
miRNA:   3'- -CUGGGCGACGa-GUGGGCGc-UCGuuca -5'
12928 3' -59.7 NC_003387.1 + 44618 0.67 0.40028
Target:  5'- cGAgCUGg-GCUCGCCCuCGGGCGGGUu -3'
miRNA:   3'- -CUgGGCgaCGAGUGGGcGCUCGUUCA- -5'
12928 3' -59.7 NC_003387.1 + 27664 0.67 0.40028
Target:  5'- aGACgCCGCUgGCcgUCAgCCGCGGGUAacGGUc -3'
miRNA:   3'- -CUG-GGCGA-CG--AGUgGGCGCUCGU--UCA- -5'
12928 3' -59.7 NC_003387.1 + 49771 0.67 0.391309
Target:  5'- cACCCGCUGaUCACgCGCu-GCGGGUu -3'
miRNA:   3'- cUGGGCGACgAGUGgGCGcuCGUUCA- -5'
12928 3' -59.7 NC_003387.1 + 38923 0.67 0.391309
Target:  5'- uGCUCGCUGUggAUCUGCGAGCGc-- -3'
miRNA:   3'- cUGGGCGACGagUGGGCGCUCGUuca -5'
12928 3' -59.7 NC_003387.1 + 12692 0.67 0.374628
Target:  5'- cGCCCGUUGUggauucccgcgcgagCGCCCGCGGGgcucUAGGUg -3'
miRNA:   3'- cUGGGCGACGa--------------GUGGGCGCUC----GUUCA- -5'
12928 3' -59.7 NC_003387.1 + 33997 0.67 0.365194
Target:  5'- uGCCCGCUGCUCGacgagugCCGCGcccuGGCGc-- -3'
miRNA:   3'- cUGGGCGACGAGUg------GGCGC----UCGUuca -5'
12928 3' -59.7 NC_003387.1 + 18393 0.67 0.365194
Target:  5'- cGAUCgGCUGCgacgggUCGgCCGCGGGCAGc- -3'
miRNA:   3'- -CUGGgCGACG------AGUgGGCGCUCGUUca -5'
12928 3' -59.7 NC_003387.1 + 27982 0.67 0.365194
Target:  5'- gGugCCGUUGCggCGCCCucgauuucgGCGAGCAc-- -3'
miRNA:   3'- -CugGGCGACGa-GUGGG---------CGCUCGUuca -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.