miRNA display CGI


Results 1 - 20 of 211 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
28025 3' -61 NC_005887.1 + 42192 0.66 0.34711
Target:  5'- -cGCGCUgGCuCGuCGCAuuGCUGCGcGCg -3'
miRNA:   3'- ccUGCGAgCG-GC-GCGUcgUGACGC-CG- -5'
28025 3' -61 NC_005887.1 + 42096 0.7 0.211304
Target:  5'- gGGGCGCgauGCCGCGUcgacgaacgAGgACuUGUGGCg -3'
miRNA:   3'- -CCUGCGag-CGGCGCG---------UCgUG-ACGCCG- -5'
28025 3' -61 NC_005887.1 + 42056 0.66 0.34711
Target:  5'- uGGACcuGCUCGCCGacuggaucgaCG-AGCGCUGUcGCg -3'
miRNA:   3'- -CCUG--CGAGCGGC----------GCgUCGUGACGcCG- -5'
28025 3' -61 NC_005887.1 + 42019 0.66 0.350381
Target:  5'- cGACgGCUCGCgCacuuccucgguguacGCGC-GCACcGCGGCc -3'
miRNA:   3'- cCUG-CGAGCG-G---------------CGCGuCGUGaCGCCG- -5'
28025 3' -61 NC_005887.1 + 41976 0.79 0.045014
Target:  5'- cGGcGCGCUCGCCuaucaGCAGCACggccUGCGGCc -3'
miRNA:   3'- -CC-UGCGAGCGGcg---CGUCGUG----ACGCCG- -5'
28025 3' -61 NC_005887.1 + 41939 0.69 0.240276
Target:  5'- ---aGCggGCgGCGCGGCGCgucuucGCGGCg -3'
miRNA:   3'- ccugCGagCGgCGCGUCGUGa-----CGCCG- -5'
28025 3' -61 NC_005887.1 + 41805 0.69 0.216847
Target:  5'- -cGCGCUguauCCgGCGCGGCGCgcgGCGGCc -3'
miRNA:   3'- ccUGCGAgc--GG-CGCGUCGUGa--CGCCG- -5'
28025 3' -61 NC_005887.1 + 41714 0.78 0.050464
Target:  5'- -uGCGCUCGCCGCGCGcuuuCAUcGCGGCu -3'
miRNA:   3'- ccUGCGAGCGGCGCGUc---GUGaCGCCG- -5'
28025 3' -61 NC_005887.1 + 41544 0.68 0.270461
Target:  5'- aGGCGCUCGgCGCGCacgcgaagucagccAGCGCcgagacguuccUGuCGGCc -3'
miRNA:   3'- cCUGCGAGCgGCGCG--------------UCGUG-----------AC-GCCG- -5'
28025 3' -61 NC_005887.1 + 41272 0.66 0.363684
Target:  5'- uGGCGCcgUCGaCCuGCGCAcgggcGCGCUGCuGCc -3'
miRNA:   3'- cCUGCG--AGC-GG-CGCGU-----CGUGACGcCG- -5'
28025 3' -61 NC_005887.1 + 41106 0.68 0.264454
Target:  5'- cGACGUUuucgcgugcugagCGCCGCGCAGCGCccGCcagauaaGGUg -3'
miRNA:   3'- cCUGCGA-------------GCGGCGCGUCGUGa-CG-------CCG- -5'
28025 3' -61 NC_005887.1 + 41023 0.66 0.372174
Target:  5'- aGGCGUcuacuggCGCCGCGCGGUGCagGuCGaGCu -3'
miRNA:   3'- cCUGCGa------GCGGCGCGUCGUGa-C-GC-CG- -5'
28025 3' -61 NC_005887.1 + 41003 0.67 0.293431
Target:  5'- -aGCGCUCGa-GCGUcucGCcCUGCGGCu -3'
miRNA:   3'- ccUGCGAGCggCGCGu--CGuGACGCCG- -5'
28025 3' -61 NC_005887.1 + 40157 0.74 0.107887
Target:  5'- -cGCGCUCGCCGCGUgugagcuGCGC-GaCGGCa -3'
miRNA:   3'- ccUGCGAGCGGCGCGu------CGUGaC-GCCG- -5'
28025 3' -61 NC_005887.1 + 40123 0.69 0.228307
Target:  5'- aGGACGCcuacagcgUGCgGUGC-GCGCUGCGcGCn -3'
miRNA:   3'- -CCUGCGa-------GCGgCGCGuCGUGACGC-CG- -5'
28025 3' -61 NC_005887.1 + 40009 0.68 0.252763
Target:  5'- aGGACGUcgCGgUGCGCaucauGGCGCggcucgagGCGGCc -3'
miRNA:   3'- -CCUGCGa-GCgGCGCG-----UCGUGa-------CGCCG- -5'
28025 3' -61 NC_005887.1 + 39821 0.7 0.190338
Target:  5'- cGACag-CGCCuuGCGCAGCG-UGCGGCa -3'
miRNA:   3'- cCUGcgaGCGG--CGCGUCGUgACGCCG- -5'
28025 3' -61 NC_005887.1 + 39782 0.7 0.205883
Target:  5'- cGGCGCUCGCgccgaucguugCGCGCGucgucacuucGCACUGCuGGa -3'
miRNA:   3'- cCUGCGAGCG-----------GCGCGU----------CGUGACG-CCg -5'
28025 3' -61 NC_005887.1 + 39779 0.73 0.114008
Target:  5'- --cCGCUCGCCGCucaCGGCcaUGCGGCg -3'
miRNA:   3'- ccuGCGAGCGGCGc--GUCGugACGCCG- -5'
28025 3' -61 NC_005887.1 + 39466 0.7 0.190338
Target:  5'- cGACGUguccgucgUCGCCuGCGCGuuauccaccGC-CUGCGGCa -3'
miRNA:   3'- cCUGCG--------AGCGG-CGCGU---------CGuGACGCCG- -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.