miRNA display CGI


Results 1 - 20 of 24 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
9641 5' -66.2 NC_002577.1 + 153738 0.66 0.485074
Target:  5'- cGCaGUCgGGGCGCggagugUGGgUGGGUGGc -3'
miRNA:   3'- aCG-CAGgCCCGCGa-----GCCgGCCCGCUu -5'
9641 5' -66.2 NC_002577.1 + 153785 0.66 0.458719
Target:  5'- cUGCGUC---GCGC-CGGCCGGGCc-- -3'
miRNA:   3'- -ACGCAGgccCGCGaGCCGGCCCGcuu -5'
9641 5' -66.2 NC_002577.1 + 97739 0.66 0.450105
Target:  5'- cGCGUCgCcucGGCGUcCGuGCUGGGCGGGa -3'
miRNA:   3'- aCGCAG-Gc--CCGCGaGC-CGGCCCGCUU- -5'
9641 5' -66.2 NC_002577.1 + 123094 0.67 0.416568
Target:  5'- cGCcg-CGGGUGCggGGCCGGGgGGAa -3'
miRNA:   3'- aCGcagGCCCGCGagCCGGCCCgCUU- -5'
9641 5' -66.2 NC_002577.1 + 10520 0.67 0.416568
Target:  5'- cGCcg-CGGGUGCggGGCCGGGgGGAa -3'
miRNA:   3'- aCGcagGCCCGCGagCCGGCCCgCUU- -5'
9641 5' -66.2 NC_002577.1 + 9738 0.67 0.408425
Target:  5'- uUGgGUCCGGGCccgaguaggGUUCGGCCGG-Cu-- -3'
miRNA:   3'- -ACgCAGGCCCG---------CGAGCCGGCCcGcuu -5'
9641 5' -66.2 NC_002577.1 + 123875 0.67 0.408425
Target:  5'- uUGgGUCCGGGCccgaguaggGUUCGGCCGG-Cu-- -3'
miRNA:   3'- -ACgCAGGCCCG---------CGAGCCGGCCcGcuu -5'
9641 5' -66.2 NC_002577.1 + 129987 0.69 0.325731
Target:  5'- gGCGaagaaguagCCGGGCGCgaagCGGCUGGGaauCGGGu -3'
miRNA:   3'- aCGCa--------GGCCCGCGa---GCCGGCCC---GCUU- -5'
9641 5' -66.2 NC_002577.1 + 3626 0.69 0.298904
Target:  5'- gGCGaagaaguagCCGGGCGCgaagCGGCUGGGauCGGGu -3'
miRNA:   3'- aCGCa--------GGCCCGCGa---GCCGGCCC--GCUU- -5'
9641 5' -66.2 NC_002577.1 + 115572 0.69 0.286146
Target:  5'- gGCGUCUGcGGCGCgCGaagcuguguuGCgGGGCGAAa -3'
miRNA:   3'- aCGCAGGC-CCGCGaGC----------CGgCCCGCUU- -5'
9641 5' -66.2 NC_002577.1 + 11850 0.7 0.27382
Target:  5'- gGCGUCCggagGGGCGCgcggaucagCGGUCGGGUc-- -3'
miRNA:   3'- aCGCAGG----CCCGCGa--------GCCGGCCCGcuu -5'
9641 5' -66.2 NC_002577.1 + 121763 0.7 0.27382
Target:  5'- gGCGUCCggagGGGCGCgcggaucagCGGUCGGGUc-- -3'
miRNA:   3'- aCGCAGG----CCCGCGa--------GCCGGCCCGcuu -5'
9641 5' -66.2 NC_002577.1 + 11835 0.7 0.261924
Target:  5'- gGCGacgacCCGGGCGC-CGacCCGGGCGAc -3'
miRNA:   3'- aCGCa----GGCCCGCGaGCc-GGCCCGCUu -5'
9641 5' -66.2 NC_002577.1 + 121848 0.71 0.228753
Target:  5'- cGCGgaCCGGGCGCggaccCGGgcgacgacCCGGGCGAc -3'
miRNA:   3'- aCGCa-GGCCCGCGa----GCC--------GGCCCGCUu -5'
9641 5' -66.2 NC_002577.1 + 11766 0.71 0.228753
Target:  5'- cGCGgaCCGGGCGCggaccCGGgcgacgacCCGGGCGAc -3'
miRNA:   3'- aCGCa-GGCCCGCGa----GCC--------GGCCCGCUu -5'
9641 5' -66.2 NC_002577.1 + 125127 0.72 0.208665
Target:  5'- gUGUGUgUGGGUGUgcgcgCGGCCGGGaCGGGa -3'
miRNA:   3'- -ACGCAgGCCCGCGa----GCCGGCCC-GCUU- -5'
9641 5' -66.2 NC_002577.1 + 8487 0.72 0.208665
Target:  5'- gUGUGUgUGGGUGUgcgcgCGGCCGGGaCGGGa -3'
miRNA:   3'- -ACGCAgGCCCGCGa----GCCGGCCC-GCUU- -5'
9641 5' -66.2 NC_002577.1 + 38021 0.72 0.207221
Target:  5'- -cCG-CUGGGCGCUCGGCCgcaaaagacgaaauGGGUGGAg -3'
miRNA:   3'- acGCaGGCCCGCGAGCCGG--------------CCCGCUU- -5'
9641 5' -66.2 NC_002577.1 + 125680 0.73 0.173034
Target:  5'- gGCGuUCCGGGCGgUCGGCgagucGGCGGAg -3'
miRNA:   3'- aCGC-AGGCCCGCgAGCCGgc---CCGCUU- -5'
9641 5' -66.2 NC_002577.1 + 7934 0.73 0.173034
Target:  5'- gGCGuUCCGGGCGgUCGGCgagucGGCGGAg -3'
miRNA:   3'- aCGC-AGGCCCGCgAGCCGgc---CCGCUU- -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.