miRNA display CGI


Results 1 - 20 of 21 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
11950 5' -54.1 NC_003278.1 + 6802 0.66 0.65933
Target:  5'- uCGCGCGGGcuUCGu---CGGGCAUGUCGg -3'
miRNA:   3'- -GCGCGCCU--AGUugacGCUCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 27635 0.66 0.646703
Target:  5'- gCGgGCcgGGAUCGggaagcggcagugACUGCGGGUGuCAUCAg -3'
miRNA:   3'- -GCgCG--CCUAGU-------------UGACGCUCGU-GUAGU- -5'
11950 5' -54.1 NC_003278.1 + 4542 0.66 0.636357
Target:  5'- gCGCGCcguagguguucGGGUCGuACUGCGcGGC-CAUCu -3'
miRNA:   3'- -GCGCG-----------CCUAGU-UGACGC-UCGuGUAGu -5'
11950 5' -54.1 NC_003278.1 + 14057 0.66 0.613367
Target:  5'- --gGCGGGUCAggugucggcugACUGgGcGCACGUCGu -3'
miRNA:   3'- gcgCGCCUAGU-----------UGACgCuCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 28772 0.66 0.613367
Target:  5'- aGCGCuGGAuguucaUCGAUgacgcgGcCGAGCGCGUCGc -3'
miRNA:   3'- gCGCG-CCU------AGUUGa-----C-GCUCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 9035 0.67 0.601893
Target:  5'- aGCGCGGGg-AACUGUGcggccAGUugGUCGg -3'
miRNA:   3'- gCGCGCCUagUUGACGC-----UCGugUAGU- -5'
11950 5' -54.1 NC_003278.1 + 2007 0.67 0.579041
Target:  5'- gGCaGCGuGAUcCAACUGCGcgaGGCcgACAUCAa -3'
miRNA:   3'- gCG-CGC-CUA-GUUGACGC---UCG--UGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 19404 0.68 0.545143
Target:  5'- cCGCGCuGGGUgCGGaagGCGcGCACGUCGc -3'
miRNA:   3'- -GCGCG-CCUA-GUUga-CGCuCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 29652 0.68 0.533981
Target:  5'- gGCGCGGAUCuGCUccgcgaacaGCGAGC-CGa-- -3'
miRNA:   3'- gCGCGCCUAGuUGA---------CGCUCGuGUagu -5'
11950 5' -54.1 NC_003278.1 + 32715 0.68 0.533981
Target:  5'- cCGCGgGGAUCGGCgacgGAGUACGUg- -3'
miRNA:   3'- -GCGCgCCUAGUUGacg-CUCGUGUAgu -5'
11950 5' -54.1 NC_003278.1 + 19363 0.68 0.522901
Target:  5'- aGCGCGGcgCc-CUG-GAGCAgGUCAg -3'
miRNA:   3'- gCGCGCCuaGuuGACgCUCGUgUAGU- -5'
11950 5' -54.1 NC_003278.1 + 22735 0.68 0.490227
Target:  5'- gGCGCGGAU--GCU--GAGCACGUCc -3'
miRNA:   3'- gCGCGCCUAguUGAcgCUCGUGUAGu -5'
11950 5' -54.1 NC_003278.1 + 1585 0.69 0.479547
Target:  5'- aGCuGCGGAUagacccgcaGGCcgGCGAGCugGUCGu -3'
miRNA:   3'- gCG-CGCCUAg--------UUGa-CGCUCGugUAGU- -5'
11950 5' -54.1 NC_003278.1 + 20371 0.69 0.458536
Target:  5'- --gGCGGGUCAGaacaGAGCGCAUCGa -3'
miRNA:   3'- gcgCGCCUAGUUgacgCUCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 1751 0.69 0.448217
Target:  5'- -uCGCGGucuUCAGCgccgUGCGcAGCGCGUCGa -3'
miRNA:   3'- gcGCGCCu--AGUUG----ACGC-UCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 32973 0.7 0.427971
Target:  5'- gGCGCGGuGUCGGCcagUGCGcGGCACGaCAa -3'
miRNA:   3'- gCGCGCC-UAGUUG---ACGC-UCGUGUaGU- -5'
11950 5' -54.1 NC_003278.1 + 9770 0.7 0.427971
Target:  5'- gGCGCuGuugCAGCcgGCGAGCaACAUCAg -3'
miRNA:   3'- gCGCGcCua-GUUGa-CGCUCG-UGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 6658 0.7 0.378896
Target:  5'- gCGCgaaGCGGucgggcaugccagGUCGugUGCGAGCACGUa- -3'
miRNA:   3'- -GCG---CGCC-------------UAGUugACGCUCGUGUAgu -5'
11950 5' -54.1 NC_003278.1 + 28118 0.71 0.361604
Target:  5'- gGCGCGG--CAAgUGCGgcgacaccuGGCACAUCAa -3'
miRNA:   3'- gCGCGCCuaGUUgACGC---------UCGUGUAGU- -5'
11950 5' -54.1 NC_003278.1 + 22620 0.73 0.265396
Target:  5'- cCGCGCGGGggga-UGCGAGCAgccCGUCAu -3'
miRNA:   3'- -GCGCGCCUaguugACGCUCGU---GUAGU- -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.