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
7285 3' -52.6 NC_001900.1 + 1421 0.71 0.518729
Target:  5'- gGACCAGAugCUCgGAuacguUCGAGgGCCGu -3'
miRNA:   3'- -UUGGUCUugGAGgCU-----AGCUUgUGGUc -5'
7285 3' -52.6 NC_001900.1 + 3087 0.67 0.774446
Target:  5'- cGCCGGucGCCUUCGGUC-AGCAgCAGu -3'
miRNA:   3'- uUGGUCu-UGGAGGCUAGcUUGUgGUC- -5'
7285 3' -52.6 NC_001900.1 + 3333 0.66 0.814601
Target:  5'- uGACCAGGcagagcAUCUCCaGGUCGAACggguuGCCGa -3'
miRNA:   3'- -UUGGUCU------UGGAGG-CUAGCUUG-----UGGUc -5'
7285 3' -52.6 NC_001900.1 + 4962 0.67 0.742639
Target:  5'- gAGCCGGAAgCUCUcaGUCGAGCcguACCGGu -3'
miRNA:   3'- -UUGGUCUUgGAGGc-UAGCUUG---UGGUC- -5'
7285 3' -52.6 NC_001900.1 + 7183 0.65 0.830719
Target:  5'- uGGCCGGGA-CUCCGugguagcccagcucAUCGAGCuugGCCAGc -3'
miRNA:   3'- -UUGGUCUUgGAGGC--------------UAGCUUG---UGGUC- -5'
7285 3' -52.6 NC_001900.1 + 9242 1.06 0.002471
Target:  5'- gAACCAGAACCUCCGAUCGAACACCAGc -3'
miRNA:   3'- -UUGGUCUUGGAGGCUAGCUUGUGGUC- -5'
7285 3' -52.6 NC_001900.1 + 9851 0.7 0.596687
Target:  5'- -cCCGGAGCUU-CGGUCGAugACCGa -3'
miRNA:   3'- uuGGUCUUGGAgGCUAGCUugUGGUc -5'
7285 3' -52.6 NC_001900.1 + 10105 0.74 0.368672
Target:  5'- uGCUGGAucuuGCCUUCGGcguccUCGAACGCCAGg -3'
miRNA:   3'- uUGGUCU----UGGAGGCU-----AGCUUGUGGUC- -5'
7285 3' -52.6 NC_001900.1 + 11607 0.67 0.763984
Target:  5'- cGGCCGGAguGCCUUCGGuaguugcggugUCGGACAUguGu -3'
miRNA:   3'- -UUGGUCU--UGGAGGCU-----------AGCUUGUGguC- -5'
7285 3' -52.6 NC_001900.1 + 13313 0.72 0.482294
Target:  5'- gAGCCuGAGCCagaagucauggcgCUGAUCGAGCGCCGa -3'
miRNA:   3'- -UUGGuCUUGGa------------GGCUAGCUUGUGGUc -5'
7285 3' -52.6 NC_001900.1 + 13944 0.68 0.720817
Target:  5'- uGACCAGcuCUUCgGGguagaCGAGCACCGGc -3'
miRNA:   3'- -UUGGUCuuGGAGgCUa----GCUUGUGGUC- -5'
7285 3' -52.6 NC_001900.1 + 14250 0.71 0.527463
Target:  5'- cAUCAGAACCUCuUGAUCGuguagucgacccGCGCCAGu -3'
miRNA:   3'- uUGGUCUUGGAG-GCUAGCu-----------UGUGGUC- -5'
7285 3' -52.6 NC_001900.1 + 15103 0.71 0.507894
Target:  5'- gGACUGGAGCCaccggCUGGUCGAgcgucggccACACCAGc -3'
miRNA:   3'- -UUGGUCUUGGa----GGCUAGCU---------UGUGGUC- -5'
7285 3' -52.6 NC_001900.1 + 15445 0.66 0.824158
Target:  5'- cGAUC-GAGCUgCCGAUCGAugACCu- -3'
miRNA:   3'- -UUGGuCUUGGaGGCUAGCUugUGGuc -5'
7285 3' -52.6 NC_001900.1 + 15753 0.68 0.720817
Target:  5'- cGAUCGGGAUCUCCGAagaugugaccgUCGAGCugaaGCCGc -3'
miRNA:   3'- -UUGGUCUUGGAGGCU-----------AGCUUG----UGGUc -5'
7285 3' -52.6 NC_001900.1 + 18319 0.67 0.771323
Target:  5'- cAGCCAgGAGCCUgCGucAUCGAACcagcucuugaucuuGCCGGg -3'
miRNA:   3'- -UUGGU-CUUGGAgGC--UAGCUUG--------------UGGUC- -5'
7285 3' -52.6 NC_001900.1 + 22420 0.66 0.824158
Target:  5'- cGACgAGAACCUCCGcgaCGAGauCACCc- -3'
miRNA:   3'- -UUGgUCUUGGAGGCua-GCUU--GUGGuc -5'
7285 3' -52.6 NC_001900.1 + 23033 0.66 0.784751
Target:  5'- uGACCGGAucuucgACCUCagcgacgaGAUCGAgugGCugCGGg -3'
miRNA:   3'- -UUGGUCU------UGGAGg-------CUAGCU---UGugGUC- -5'
7285 3' -52.6 NC_001900.1 + 23873 0.69 0.664835
Target:  5'- cGACCGGAGCCcgUCG-UCGGACcacaggGCCAGu -3'
miRNA:   3'- -UUGGUCUUGGa-GGCuAGCUUG------UGGUC- -5'
7285 3' -52.6 NC_001900.1 + 29355 0.67 0.753378
Target:  5'- -uUCGGggUCggugCCGAUC-AGCACCGGa -3'
miRNA:   3'- uuGGUCuuGGa---GGCUAGcUUGUGGUC- -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.