miRNA display CGI


Results 1 - 20 of 44 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
11498 3' -53 NC_003085.1 + 17375 0.66 0.827382
Target:  5'- cGCcaGCGAGCaGGACUCGUGUUggCGa -3'
miRNA:   3'- cCG--UGCUCGcUUUGAGCACGGuaGCc -5'
11498 3' -53 NC_003085.1 + 38286 0.67 0.762897
Target:  5'- uGGCGCGAGCucgggcuuugccuguGAcggccaguuGGCgUCGUGCCuaaagcUCGGg -3'
miRNA:   3'- -CCGUGCUCG---------------CU---------UUG-AGCACGGu-----AGCC- -5'
11498 3' -53 NC_003085.1 + 4525 0.67 0.779201
Target:  5'- gGGCACG-GCGAuACcuccCGUGCgGUCu- -3'
miRNA:   3'- -CCGUGCuCGCUuUGa---GCACGgUAGcc -5'
11498 3' -53 NC_003085.1 + 1584 0.67 0.789192
Target:  5'- cGGCGCG-GCGu-ACgCGUGCCGUg-- -3'
miRNA:   3'- -CCGUGCuCGCuuUGaGCACGGUAgcc -5'
11498 3' -53 NC_003085.1 + 44797 0.67 0.789192
Target:  5'- cGGCGCc-GUGAAagGCUCGccucUGCCAcCGGg -3'
miRNA:   3'- -CCGUGcuCGCUU--UGAGC----ACGGUaGCC- -5'
11498 3' -53 NC_003085.1 + 41471 0.67 0.799017
Target:  5'- gGGCGCGGGUGAAguaccGCgccagCGcUGCCuacCGGc -3'
miRNA:   3'- -CCGUGCUCGCUU-----UGa----GC-ACGGua-GCC- -5'
11498 3' -53 NC_003085.1 + 5284 0.67 0.802898
Target:  5'- aGCACGGGCGAAgaagacgaagugaagGCgCGcGCCGUCc- -3'
miRNA:   3'- cCGUGCUCGCUU---------------UGaGCaCGGUAGcc -5'
11498 3' -53 NC_003085.1 + 7407 0.66 0.808664
Target:  5'- uGGCACGAGUccGACUgGgGCCcuccCGGg -3'
miRNA:   3'- -CCGUGCUCGcuUUGAgCaCGGua--GCC- -5'
11498 3' -53 NC_003085.1 + 37772 0.66 0.808664
Target:  5'- uGGUAC-AGCGaAGAC-CGUcaacauccucGCCAUCGGc -3'
miRNA:   3'- -CCGUGcUCGC-UUUGaGCA----------CGGUAGCC- -5'
11498 3' -53 NC_003085.1 + 5660 0.67 0.758764
Target:  5'- uGCGCGAGCgccgcggaGAGAUUCcG-GCCAUuCGGg -3'
miRNA:   3'- cCGUGCUCG--------CUUUGAG-CaCGGUA-GCC- -5'
11498 3' -53 NC_003085.1 + 1780 0.68 0.748342
Target:  5'- cGUugGAGUGGGACagGUGgcCCGUUGGc -3'
miRNA:   3'- cCGugCUCGCUUUGagCAC--GGUAGCC- -5'
11498 3' -53 NC_003085.1 + 21613 0.68 0.715321
Target:  5'- uGGCGCGAGCGAcccgcgcGAgaCG-GCCAU-GGc -3'
miRNA:   3'- -CCGUGCUCGCU-------UUgaGCaCGGUAgCC- -5'
11498 3' -53 NC_003085.1 + 40074 0.77 0.249471
Target:  5'- uGGCACGAGUuucGCUCGUGCCGUg-- -3'
miRNA:   3'- -CCGUGCUCGcuuUGAGCACGGUAgcc -5'
11498 3' -53 NC_003085.1 + 48607 0.73 0.417867
Target:  5'- aGGCGCGAGCGAugcGCUUGgcGCCGUa-- -3'
miRNA:   3'- -CCGUGCUCGCUu--UGAGCa-CGGUAgcc -5'
11498 3' -53 NC_003085.1 + 19061 0.71 0.573033
Target:  5'- cGGCGCGcGGCGGAGCagGcGCCGggccCGGa -3'
miRNA:   3'- -CCGUGC-UCGCUUUGagCaCGGUa---GCC- -5'
11498 3' -53 NC_003085.1 + 9146 0.7 0.595065
Target:  5'- cGGCACcuGGCGGAGCUCGccGCCG-CGc -3'
miRNA:   3'- -CCGUGc-UCGCUUUGAGCa-CGGUaGCc -5'
11498 3' -53 NC_003085.1 + 31451 0.7 0.595065
Target:  5'- uGGCACGuaCGGc-CUCGcGCCGUCGGa -3'
miRNA:   3'- -CCGUGCucGCUuuGAGCaCGGUAGCC- -5'
11498 3' -53 NC_003085.1 + 38202 0.7 0.621666
Target:  5'- cGGCAacuCGGGCGGcgguGGCUCGUGCaCucucgacggcagcacGUCGGc -3'
miRNA:   3'- -CCGU---GCUCGCU----UUGAGCACG-G---------------UAGCC- -5'
11498 3' -53 NC_003085.1 + 23783 0.69 0.650539
Target:  5'- cGGCAUGGGCGAA-UUCGU-CCGgcCGGu -3'
miRNA:   3'- -CCGUGCUCGCUUuGAGCAcGGUa-GCC- -5'
11498 3' -53 NC_003085.1 + 2085 0.68 0.705568
Target:  5'- cGCgACGAGCGcAGCcgccgcaccUCGgcGCCAUCGGc -3'
miRNA:   3'- cCG-UGCUCGCuUUG---------AGCa-CGGUAGCC- -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.