miRNA display CGI


Results 1 - 20 of 27 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
2811 3' -62.4 NC_001491.2 + 49648 0.79 0.11394
Target:  5'- cGCCGGCCU--GCCCGCuccaugucUGCCGUGGGg -3'
miRNA:   3'- -CGGUCGGGugUGGGCGc-------ACGGCACCC- -5'
2811 3' -62.4 NC_001491.2 + 140021 0.74 0.240788
Target:  5'- gGCCAGcCCCAUGCCCgucuuccacucgGCGgacccgcugcgccgcGCCGUGGGg -3'
miRNA:   3'- -CGGUC-GGGUGUGGG------------CGCa--------------CGGCACCC- -5'
2811 3' -62.4 NC_001491.2 + 1790 0.72 0.307586
Target:  5'- cGCC-GUCCACGCCCGCG-GCCGc--- -3'
miRNA:   3'- -CGGuCGGGUGUGGGCGCaCGGCaccc -5'
2811 3' -62.4 NC_001491.2 + 143882 0.71 0.364302
Target:  5'- gGCCAGCCCACACUaucgauUGUGauugGCCGUugaugauGGGc -3'
miRNA:   3'- -CGGUCGGGUGUGG------GCGCa---CGGCA-------CCC- -5'
2811 3' -62.4 NC_001491.2 + 140176 0.7 0.412799
Target:  5'- -gCGGUCuCGCugCCGCGcuCCGUGGGg -3'
miRNA:   3'- cgGUCGG-GUGugGGCGCacGGCACCC- -5'
2811 3' -62.4 NC_001491.2 + 114769 0.69 0.4642
Target:  5'- cGCCGGCgagCGCACCCGCGUuccccuggcuCCGaGGGa -3'
miRNA:   3'- -CGGUCGg--GUGUGGGCGCAc---------GGCaCCC- -5'
2811 3' -62.4 NC_001491.2 + 125944 0.69 0.482066
Target:  5'- aUCAGCCCuauCACCUcuGgGUGCUG-GGGg -3'
miRNA:   3'- cGGUCGGGu--GUGGG--CgCACGGCaCCC- -5'
2811 3' -62.4 NC_001491.2 + 100350 0.69 0.482066
Target:  5'- cGCUAGCCCACAgC-GCGa-CCGUGGa -3'
miRNA:   3'- -CGGUCGGGUGUgGgCGCacGGCACCc -5'
2811 3' -62.4 NC_001491.2 + 125607 0.69 0.491123
Target:  5'- cGCCccggGGCggCCGCugCCGCGgcggcgGCCGUcggaGGGg -3'
miRNA:   3'- -CGG----UCG--GGUGugGGCGCa-----CGGCA----CCC- -5'
2811 3' -62.4 NC_001491.2 + 120711 0.69 0.491123
Target:  5'- cCCGGCCCAUACCuCGacgagaguaUGUGCCG-GGu -3'
miRNA:   3'- cGGUCGGGUGUGG-GC---------GCACGGCaCCc -5'
2811 3' -62.4 NC_001491.2 + 1547 0.68 0.546016
Target:  5'- cGCaCAGCCCagcgaugcgcgGCGCCCccauuggGCG-GCgGUGGGc -3'
miRNA:   3'- -CG-GUCGGG-----------UGUGGG-------CGCaCGgCACCC- -5'
2811 3' -62.4 NC_001491.2 + 81346 0.68 0.546965
Target:  5'- aCCGGCgugacgauaaauUCACACaCgGCGgccugGCCGUGGGc -3'
miRNA:   3'- cGGUCG------------GGUGUG-GgCGCa----CGGCACCC- -5'
2811 3' -62.4 NC_001491.2 + 141586 0.67 0.566047
Target:  5'- cGCgGGCCCuGCGCCCGUaccugGCCcggGGGc -3'
miRNA:   3'- -CGgUCGGG-UGUGGGCGca---CGGca-CCC- -5'
2811 3' -62.4 NC_001491.2 + 125137 0.67 0.575652
Target:  5'- cGCCccaccucgucuuGGCCCccaccuucgccGCAgCCGCG-GCCGgGGGg -3'
miRNA:   3'- -CGG------------UCGGG-----------UGUgGGCGCaCGGCaCCC- -5'
2811 3' -62.4 NC_001491.2 + 124470 0.67 0.585295
Target:  5'- gGCCAGgcagcCCCGCAgCCGCGcGCaCGUGu- -3'
miRNA:   3'- -CGGUC-----GGGUGUgGGCGCaCG-GCACcc -5'
2811 3' -62.4 NC_001491.2 + 116828 0.67 0.604666
Target:  5'- cCCGGCCCAgGCcgCCGC-UGCCGcGGc -3'
miRNA:   3'- cGGUCGGGUgUG--GGCGcACGGCaCCc -5'
2811 3' -62.4 NC_001491.2 + 34483 0.67 0.604666
Target:  5'- gGCCAcgcgcGCCCugGCCCGgGacgaacGUCGUcGGGu -3'
miRNA:   3'- -CGGU-----CGGGugUGGGCgCa-----CGGCA-CCC- -5'
2811 3' -62.4 NC_001491.2 + 63826 0.66 0.614382
Target:  5'- uCCAGCUCA-GCCCGCGUGUacaccuccaGGGg -3'
miRNA:   3'- cGGUCGGGUgUGGGCGCACGgca------CCC- -5'
2811 3' -62.4 NC_001491.2 + 116732 0.66 0.614382
Target:  5'- gGCCcucgGGCCCcgacgcaagGCugCCGCGgccgcgGCCGcuccgGGGa -3'
miRNA:   3'- -CGG----UCGGG---------UGugGGCGCa-----CGGCa----CCC- -5'
2811 3' -62.4 NC_001491.2 + 114970 0.66 0.643577
Target:  5'- gGCC-GCCCugACuCCGCGggucgccugcGCCGUGc- -3'
miRNA:   3'- -CGGuCGGGugUG-GGCGCa---------CGGCACcc -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.