miRNA display CGI


Results 1 - 20 of 82 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
28135 5' -61.9 NC_005887.1 + 312 0.7 0.163798
Target:  5'- -aGGCCGCGGUGC-GCGCguacaccgaggaaguGcGCGAGCc -3'
miRNA:   3'- cgUCGGCGUCACGaCGCG---------------C-CGCUCGc -5'
28135 5' -61.9 NC_005887.1 + 351 0.67 0.279397
Target:  5'- --cGUCGCA-UG-UGCGCGGUGAGCu -3'
miRNA:   3'- cguCGGCGUcACgACGCGCCGCUCGc -5'
28135 5' -61.9 NC_005887.1 + 486 0.72 0.113671
Target:  5'- cGCAGCaacaGCGG-GCgGCGCGGCGcgucuucgcGGCGc -3'
miRNA:   3'- -CGUCGg---CGUCaCGaCGCGCCGC---------UCGC- -5'
28135 5' -61.9 NC_005887.1 + 625 0.67 0.279397
Target:  5'- -uGGCCgGCGGUcuucGCgcuguauccgGCGCGGCGcGCGg -3'
miRNA:   3'- cgUCGG-CGUCA----CGa---------CGCGCCGCuCGC- -5'
28135 5' -61.9 NC_005887.1 + 632 0.75 0.066718
Target:  5'- -aAGCCGCGaUGaaagcGCGCGGCGAGCGc -3'
miRNA:   3'- cgUCGGCGUcACga---CGCGCCGCUCGC- -5'
28135 5' -61.9 NC_005887.1 + 840 0.66 0.293547
Target:  5'- cGCGGCCGCgaagaaagccaaGGUGCccguggacGCGUGGCccGCGc -3'
miRNA:   3'- -CGUCGGCG------------UCACGa-------CGCGCCGcuCGC- -5'
28135 5' -61.9 NC_005887.1 + 1486 0.69 0.200398
Target:  5'- aCGGCgUGCGGcGCUcGCGCGGCGcGGCc -3'
miRNA:   3'- cGUCG-GCGUCaCGA-CGCGCCGC-UCGc -5'
28135 5' -61.9 NC_005887.1 + 2189 0.66 0.289244
Target:  5'- cCGGCCGCGGUGaucggGCagcgcaaaccgauggGCGGCuGGCGc -3'
miRNA:   3'- cGUCGGCGUCACga---CG---------------CGCCGcUCGC- -5'
28135 5' -61.9 NC_005887.1 + 2570 0.7 0.170967
Target:  5'- --cGCCGCAugGCcGUgaGCGGCGAGCGg -3'
miRNA:   3'- cguCGGCGUcaCGaCG--CGCCGCUCGC- -5'
28135 5' -61.9 NC_005887.1 + 2605 0.67 0.252735
Target:  5'- aGUAGCCGCccgacAGcGCcuUGCGCaGCGuGCGg -3'
miRNA:   3'- -CGUCGGCG-----UCaCG--ACGCGcCGCuCGC- -5'
28135 5' -61.9 NC_005887.1 + 2999 0.72 0.120121
Target:  5'- cGguGCCGCGGcGCuUGCGCagcuuGGCG-GCGg -3'
miRNA:   3'- -CguCGGCGUCaCG-ACGCG-----CCGCuCGC- -5'
28135 5' -61.9 NC_005887.1 + 3469 0.69 0.185167
Target:  5'- cGCccuGCCaGCGGUaGC-GCGCGGCGAacaGCGu -3'
miRNA:   3'- -CGu--CGG-CGUCA-CGaCGCGCCGCU---CGC- -5'
28135 5' -61.9 NC_005887.1 + 3680 0.73 0.093565
Target:  5'- aCGGCCGaAGcGCUGCGCGGCcuGGCGc -3'
miRNA:   3'- cGUCGGCgUCaCGACGCGCCGc-UCGC- -5'
28135 5' -61.9 NC_005887.1 + 3781 0.66 0.315809
Target:  5'- cGCGGaUCGCGGUcgGC-GCGCGGCucgacGGCGu -3'
miRNA:   3'- -CGUC-GGCGUCA--CGaCGCGCCGc----UCGC- -5'
28135 5' -61.9 NC_005887.1 + 4660 0.67 0.265795
Target:  5'- uCAGCgacgCGCAGaccGCUGCGCagacGGCGAGgGu -3'
miRNA:   3'- cGUCG----GCGUCa--CGACGCG----CCGCUCgC- -5'
28135 5' -61.9 NC_005887.1 + 4684 0.68 0.228201
Target:  5'- gGCGGCCacCGGcGC--CGCGGCGAGCa -3'
miRNA:   3'- -CGUCGGc-GUCaCGacGCGCCGCUCGc -5'
28135 5' -61.9 NC_005887.1 + 5085 0.66 0.315809
Target:  5'- -uGGCUuCGGU-CUGCGCcucGGCGGGCGu -3'
miRNA:   3'- cgUCGGcGUCAcGACGCG---CCGCUCGC- -5'
28135 5' -61.9 NC_005887.1 + 5562 0.71 0.14546
Target:  5'- uGCGGCCGgugcugcggcCGGUGCUGCGCcaucGGCcuGCGu -3'
miRNA:   3'- -CGUCGGC----------GUCACGACGCG----CCGcuCGC- -5'
28135 5' -61.9 NC_005887.1 + 7477 0.69 0.195203
Target:  5'- gGCGGCgGCgGGUGCgaccgugGCGaucgucguCGGCGAGCu -3'
miRNA:   3'- -CGUCGgCG-UCACGa------CGC--------GCCGCUCGc -5'
28135 5' -61.9 NC_005887.1 + 8177 0.72 0.120121
Target:  5'- aCAGCgGCGccucgGCgaGCGCGGCGAGCu -3'
miRNA:   3'- cGUCGgCGUca---CGa-CGCGCCGCUCGc -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.