miRNA display CGI


Results 1 - 20 of 22 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
5139 5' -51.5 NC_001798.1 + 101034 0.66 0.989899
Target:  5'- gACGAGGccAAGUugGCCGAGgcCCGAGa-- -3'
miRNA:   3'- -UGCUCCaaUUCA--CGGCUC--GGUUCaug -5'
5139 5' -51.5 NC_001798.1 + 99625 0.66 0.988486
Target:  5'- -gGAGGUggacGAGaUGCucCGcGCCGAGUACg -3'
miRNA:   3'- ugCUCCAa---UUC-ACG--GCuCGGUUCAUG- -5'
5139 5' -51.5 NC_001798.1 + 137476 0.66 0.988486
Target:  5'- -gGGGGUUGGGgagggggGCCGgggcagAGCCGcGUGCu -3'
miRNA:   3'- ugCUCCAAUUCa------CGGC------UCGGUuCAUG- -5'
5139 5' -51.5 NC_001798.1 + 153690 0.66 0.987566
Target:  5'- cGCGGGGgccgccGCCGGcgcaggcucaggcgcGCCAGGUACu -3'
miRNA:   3'- -UGCUCCaauucaCGGCU---------------CGGUUCAUG- -5'
5139 5' -51.5 NC_001798.1 + 61028 0.66 0.986923
Target:  5'- -gGGGGUUAGGgggGCCGGGggacCCGAGccACa -3'
miRNA:   3'- ugCUCCAAUUCa--CGGCUC----GGUUCa-UG- -5'
5139 5' -51.5 NC_001798.1 + 53436 0.66 0.985381
Target:  5'- gGCGAGGUgGAGcugucgggcggccaGCUGAGCCGcgccauccuagcgcAGUACu -3'
miRNA:   3'- -UGCUCCAaUUCa-------------CGGCUCGGU--------------UCAUG- -5'
5139 5' -51.5 NC_001798.1 + 52340 0.66 0.985202
Target:  5'- cCGGGGUcguGGcgGCCGAGCaCGAG-GCg -3'
miRNA:   3'- uGCUCCAau-UCa-CGGCUCG-GUUCaUG- -5'
5139 5' -51.5 NC_001798.1 + 146072 0.66 0.985202
Target:  5'- cACGGGGggGAGggGuCCGGGgCGAGgcggGCg -3'
miRNA:   3'- -UGCUCCaaUUCa-C-GGCUCgGUUCa---UG- -5'
5139 5' -51.5 NC_001798.1 + 146418 0.66 0.983313
Target:  5'- gACGGGGcga---GCCGGGCaGAGUGCg -3'
miRNA:   3'- -UGCUCCaauucaCGGCUCGgUUCAUG- -5'
5139 5' -51.5 NC_001798.1 + 40489 0.66 0.983313
Target:  5'- gACGAGccugccuGUGCUGGGCCGGGggagggGCa -3'
miRNA:   3'- -UGCUCcaauu--CACGGCUCGGUUCa-----UG- -5'
5139 5' -51.5 NC_001798.1 + 137814 0.66 0.983313
Target:  5'- cGCGGGGaugUAcuGGUGCUGgaaacuguuGGCCAcGUACg -3'
miRNA:   3'- -UGCUCCa--AU--UCACGGC---------UCGGUuCAUG- -5'
5139 5' -51.5 NC_001798.1 + 108030 0.67 0.978997
Target:  5'- cCGAGGUgcGGaGCCucuuuGGGCCGugGGUACg -3'
miRNA:   3'- uGCUCCAauUCaCGG-----CUCGGU--UCAUG- -5'
5139 5' -51.5 NC_001798.1 + 148429 0.67 0.973903
Target:  5'- gGCGGGGgu-GG-GCaCGGGCgUAAGUGCg -3'
miRNA:   3'- -UGCUCCaauUCaCG-GCUCG-GUUCAUG- -5'
5139 5' -51.5 NC_001798.1 + 99127 0.67 0.973903
Target:  5'- -gGGGGUc---UGCCGcuccacGGCCAAGUACg -3'
miRNA:   3'- ugCUCCAauucACGGC------UCGGUUCAUG- -5'
5139 5' -51.5 NC_001798.1 + 97569 0.68 0.964666
Target:  5'- aGCGAGGacgggGAGcgcgGCCccGAGCCAGGgGCg -3'
miRNA:   3'- -UGCUCCaa---UUCa---CGG--CUCGGUUCaUG- -5'
5139 5' -51.5 NC_001798.1 + 152252 0.68 0.963631
Target:  5'- cCGGGGUccgcccgggagcucGUGCCGGGCCGGGg-- -3'
miRNA:   3'- uGCUCCAauu-----------CACGGCUCGGUUCaug -5'
5139 5' -51.5 NC_001798.1 + 61297 0.68 0.957362
Target:  5'- aGCGGGGUc--GUcGCCGcAGCCAcuGUACa -3'
miRNA:   3'- -UGCUCCAauuCA-CGGC-UCGGUu-CAUG- -5'
5139 5' -51.5 NC_001798.1 + 72671 0.7 0.912132
Target:  5'- cACGAGGgUAAcGUGCUG-GCCGucGUGCg -3'
miRNA:   3'- -UGCUCCaAUU-CACGGCuCGGUu-CAUG- -5'
5139 5' -51.5 NC_001798.1 + 36286 0.71 0.88539
Target:  5'- gGCGGGGggGGGUGCCGuggguguggcGGCgGGGcGCg -3'
miRNA:   3'- -UGCUCCaaUUCACGGC----------UCGgUUCaUG- -5'
5139 5' -51.5 NC_001798.1 + 53625 0.71 0.878089
Target:  5'- aGCGGGGcc----GCCGcGGCCAAGUACg -3'
miRNA:   3'- -UGCUCCaauucaCGGC-UCGGUUCAUG- -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.