miRNA display CGI


Results 1 - 20 of 85 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
19270 3' -65.5 NC_004685.1 + 74 0.72 0.108369
Target:  5'- gGGCGGGCGCGcGCCcguguggacGCGcGCCcguUGGCCGc -3'
miRNA:   3'- gUCGCCCGUGC-CGG---------CGC-CGG---ACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 135 0.78 0.04398
Target:  5'- -cGCGGGCGCGGCUGcCGGggUGGCCGg -3'
miRNA:   3'- guCGCCCGUGCCGGC-GCCggACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 195 0.66 0.294531
Target:  5'- -cGCGGGUuucggcgcgacgaguGCGcGCUgguguGCGGCUUGACUGg -3'
miRNA:   3'- guCGCCCG---------------UGC-CGG-----CGCCGGACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 750 0.72 0.11683
Target:  5'- aAGCGuGGCcugcucggucuugGCGGCagcaGCGGCCUGAUCc -3'
miRNA:   3'- gUCGC-CCG-------------UGCCGg---CGCCGGACUGGc -5'
19270 3' -65.5 NC_004685.1 + 1885 0.67 0.24183
Target:  5'- uGGCGucGGUcaGGCCGCGGCCgUGcCCGc -3'
miRNA:   3'- gUCGC--CCGugCCGGCGCCGG-ACuGGC- -5'
19270 3' -65.5 NC_004685.1 + 2761 0.67 0.24183
Target:  5'- -cGuCGGGCACGguGCCGCGGCgCgcGACgGg -3'
miRNA:   3'- guC-GCCCGUGC--CGGCGCCG-Ga-CUGgC- -5'
19270 3' -65.5 NC_004685.1 + 2846 0.7 0.167377
Target:  5'- -uGCGGGC-CGGCCaacguGCagGGCgUGACCGc -3'
miRNA:   3'- guCGCCCGuGCCGG-----CG--CCGgACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 2851 0.7 0.172917
Target:  5'- -cGCGGGUccacugcuugggcuuGCGGCCGgugcgcaCGGCgCUGGCCa -3'
miRNA:   3'- guCGCCCG---------------UGCCGGC-------GCCG-GACUGGc -5'
19270 3' -65.5 NC_004685.1 + 2981 0.7 0.149034
Target:  5'- cCAGauGGCGCGGUCGuCGGCgugcgccacagcgggUUGACCGg -3'
miRNA:   3'- -GUCgcCCGUGCCGGC-GCCG---------------GACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 3215 0.68 0.225004
Target:  5'- gCGGCggaaaugccgGGGCGgGGUCGgGGUCgGGCCGg -3'
miRNA:   3'- -GUCG----------CCCGUgCCGGCgCCGGaCUGGC- -5'
19270 3' -65.5 NC_004685.1 + 3647 0.68 0.2305
Target:  5'- -cGUGGGCAuCGGCgGUGaCCUGuACCGc -3'
miRNA:   3'- guCGCCCGU-GCCGgCGCcGGAC-UGGC- -5'
19270 3' -65.5 NC_004685.1 + 4315 0.67 0.278615
Target:  5'- uCGGCGGGCcucuccGCGaGCCGCaGGgUUGAUCc -3'
miRNA:   3'- -GUCGCCCG------UGC-CGGCG-CCgGACUGGc -5'
19270 3' -65.5 NC_004685.1 + 5458 0.68 0.213826
Target:  5'- -uGCGGGC-CGGCgcgggucauccggCGCGGUUcgUGGCCGa -3'
miRNA:   3'- guCGCCCGuGCCG-------------GCGCCGG--ACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 6687 0.67 0.26588
Target:  5'- -cGcCGGGCAgCuuCCGCgugGGCCUGACCGa -3'
miRNA:   3'- guC-GCCCGU-GccGGCG---CCGGACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 8465 0.75 0.073084
Target:  5'- aAGaCGGGUGCGGCCGCG--CUGGCCGa -3'
miRNA:   3'- gUC-GCCCGUGCCGGCGCcgGACUGGC- -5'
19270 3' -65.5 NC_004685.1 + 8692 0.66 0.312564
Target:  5'- -cGCcGGCACGGCCugcGUGGUC-GACCc -3'
miRNA:   3'- guCGcCCGUGCCGG---CGCCGGaCUGGc -5'
19270 3' -65.5 NC_004685.1 + 9550 0.67 0.253621
Target:  5'- gCGGCGauGGcCACGGCgCGCGaCCUGAUCc -3'
miRNA:   3'- -GUCGC--CC-GUGCCG-GCGCcGGACUGGc -5'
19270 3' -65.5 NC_004685.1 + 10460 0.67 0.253621
Target:  5'- aCAGCGGGUggccuauCGGgaCCGCGGCaUGuuGCCGg -3'
miRNA:   3'- -GUCGCCCGu------GCC--GGCGCCGgAC--UGGC- -5'
19270 3' -65.5 NC_004685.1 + 14931 0.66 0.29183
Target:  5'- aGGCGGGCgacGCGGCgauggcggUGCGGCgUGAguUCGu -3'
miRNA:   3'- gUCGCCCG---UGCCG--------GCGCCGgACU--GGC- -5'
19270 3' -65.5 NC_004685.1 + 16028 0.67 0.274103
Target:  5'- gAGCugaagaaGGGCGCGcGCCgcgaauaccgcaucgGCGGCCUGAacgucaCCGa -3'
miRNA:   3'- gUCG-------CCCGUGC-CGG---------------CGCCGGACU------GGC- -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.