miRNA display CGI


Results 1 - 20 of 35 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
13197 3' -58.7 NC_003401.1 + 17215 1.08 0.00184
Target:  5'- gCGAGGAGCGACCAACGGAGACCGCCAc -3'
miRNA:   3'- -GCUCCUCGCUGGUUGCCUCUGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 132757 0.86 0.064257
Target:  5'- gGAGGGGaGGCCGGCGGAgGACCGCCAu -3'
miRNA:   3'- gCUCCUCgCUGGUUGCCU-CUGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 108732 0.74 0.339985
Target:  5'- aGGGGAGuCGACCGagACGGAGAuaucCCGCg- -3'
miRNA:   3'- gCUCCUC-GCUGGU--UGCCUCU----GGCGgu -5'
13197 3' -58.7 NC_003401.1 + 132522 0.73 0.39542
Target:  5'- gCGcGGGGCGGCCGgggGCGGcGGCCGCgGg -3'
miRNA:   3'- -GCuCCUCGCUGGU---UGCCuCUGGCGgU- -5'
13197 3' -58.7 NC_003401.1 + 119819 0.72 0.43577
Target:  5'- cCGAGGcuaaacagcgcgcaGGCGGCCGccaccagggACGGgggcAGACCGCCGg -3'
miRNA:   3'- -GCUCC--------------UCGCUGGU---------UGCC----UCUGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 132602 0.71 0.522007
Target:  5'- cCGGcGGAGCGGCaccCGGGGGCgGCCc -3'
miRNA:   3'- -GCU-CCUCGCUGguuGCCUCUGgCGGu -5'
13197 3' -58.7 NC_003401.1 + 42310 0.7 0.531697
Target:  5'- aCGuaauuuGCGACCAGCGGGuggagcguGGCCGCCAc -3'
miRNA:   3'- -GCuccu--CGCUGGUUGCCU--------CUGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 119176 0.7 0.571044
Target:  5'- uGAGGGGCuGACCA----GGGCCGCCu -3'
miRNA:   3'- gCUCCUCG-CUGGUugccUCUGGCGGu -5'
13197 3' -58.7 NC_003401.1 + 103907 0.69 0.590991
Target:  5'- aGAGGccagcaucucGGCGGCCgAACGGcu-CCGCCAa -3'
miRNA:   3'- gCUCC----------UCGCUGG-UUGCCucuGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 90908 0.69 0.590991
Target:  5'- gGAGGGGCGGCCG-CGGGuacGCUGUCu -3'
miRNA:   3'- gCUCCUCGCUGGUuGCCUc--UGGCGGu -5'
13197 3' -58.7 NC_003401.1 + 119757 0.69 0.601011
Target:  5'- gCGAGGuuGCGGCCGaaacgccgACGGccuCCGCCAa -3'
miRNA:   3'- -GCUCCu-CGCUGGU--------UGCCucuGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 118565 0.69 0.621111
Target:  5'- cCGAGGAuGCGGUCAAUGGGucGAacCCGCCGg -3'
miRNA:   3'- -GCUCCU-CGCUGGUUGCCU--CU--GGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 90721 0.69 0.63017
Target:  5'- cCGAGGAGCagaggcgucgucaGGCCAACaGAcagcguacccgcGGCCGCCc -3'
miRNA:   3'- -GCUCCUCG-------------CUGGUUGcCU------------CUGGCGGu -5'
13197 3' -58.7 NC_003401.1 + 72643 0.68 0.641244
Target:  5'- uGAGG-GCGGCC-ACGGccaAGGCCGUg- -3'
miRNA:   3'- gCUCCuCGCUGGuUGCC---UCUGGCGgu -5'
13197 3' -58.7 NC_003401.1 + 20272 0.68 0.651303
Target:  5'- cCGGGGAcgcggacgccGCGGCCAuuggcuccGCGGuGACCGUg- -3'
miRNA:   3'- -GCUCCU----------CGCUGGU--------UGCCuCUGGCGgu -5'
13197 3' -58.7 NC_003401.1 + 64325 0.68 0.660345
Target:  5'- -uGGGAGUGGCCGGCGGGGuCCuugacggGUCGg -3'
miRNA:   3'- gcUCCUCGCUGGUUGCCUCuGG-------CGGU- -5'
13197 3' -58.7 NC_003401.1 + 132485 0.68 0.661348
Target:  5'- cCGGcGGGGCGgagggccgggaGCCGGgGGAGGCCGgCGg -3'
miRNA:   3'- -GCU-CCUCGC-----------UGGUUgCCUCUGGCgGU- -5'
13197 3' -58.7 NC_003401.1 + 98551 0.68 0.689327
Target:  5'- aGGGGAacgggaaagaccCGAUUAAUGGAGugCGCCAc -3'
miRNA:   3'- gCUCCUc-----------GCUGGUUGCCUCugGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 69777 0.67 0.701218
Target:  5'- gCGGGGAccguuGCGGCgGuuucggcgaaggGCGGAGagccgGCCGCCAu -3'
miRNA:   3'- -GCUCCU-----CGCUGgU------------UGCCUC-----UGGCGGU- -5'
13197 3' -58.7 NC_003401.1 + 132671 0.67 0.720849
Target:  5'- cCGGGGGGCGuCgGggcGCGGc-GCCGCCGg -3'
miRNA:   3'- -GCUCCUCGCuGgU---UGCCucUGGCGGU- -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.