miRNA display CGI


Results 1 - 20 of 90 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
23436 3' -65.8 NC_005259.1 + 68849 0.66 0.300795
Target:  5'- aGGUGGGCCAucaugucgacuugccCgCGCCGGgcgcGCcgaugagguagaugaGGCGGUg -3'
miRNA:   3'- gCCGCCCGGU---------------G-GCGGCCa---UG---------------CCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 68703 0.66 0.323191
Target:  5'- aGGCGGGCaGCgCGUCGGUGCccgagaacuGG-GGUc -3'
miRNA:   3'- gCCGCCCGgUG-GCGGCCAUG---------CCgCCG- -5'
23436 3' -65.8 NC_005259.1 + 67981 0.84 0.014674
Target:  5'- gCGGCGuGGCCACCGCCGcgagcGUcgacuugcccuccuGCGGCGGCa -3'
miRNA:   3'- -GCCGC-CCGGUGGCGGC-----CA--------------UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 67711 0.67 0.288733
Target:  5'- uCGGCGGGCauacCCGucagccucgauCCGaUAcCGGCGGCc -3'
miRNA:   3'- -GCCGCCCGgu--GGC-----------GGCcAU-GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 67216 0.7 0.16657
Target:  5'- uCGGCgGGGUCGauGCCGaccACGGCGGUg -3'
miRNA:   3'- -GCCG-CCCGGUggCGGCca-UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 66619 0.74 0.082384
Target:  5'- gGGCGguauuucucgucccuGGCCACCgcucggauugcuGCCGGU-CGGCGGUg -3'
miRNA:   3'- gCCGC---------------CCGGUGG------------CGGCCAuGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 66258 0.75 0.071539
Target:  5'- -aGCGcGGCC-CgCGCCGG-GCGGCGGCu -3'
miRNA:   3'- gcCGC-CCGGuG-GCGGCCaUGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 65857 0.67 0.282197
Target:  5'- uGGU-GGCCuCCGucugccCCGGUGgGGCGGUc -3'
miRNA:   3'- gCCGcCCGGuGGC------GGCCAUgCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 65110 0.67 0.263295
Target:  5'- aCGGUcaGuGcGUCACCGUCGGcgcacCGGCGGCc -3'
miRNA:   3'- -GCCG--C-C-CGGUGGCGGCCau---GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 64780 0.67 0.28676
Target:  5'- uCGGCGGcCCGCUgcgacuggcuguguGCCucGGccuCGGCGGCa -3'
miRNA:   3'- -GCCGCCcGGUGG--------------CGG--CCau-GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 64444 0.66 0.323191
Target:  5'- uGcCGGGgCGCUGCCcuUGgGGCGGCg -3'
miRNA:   3'- gCcGCCCgGUGGCGGccAUgCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 63717 0.68 0.228591
Target:  5'- gGGaucgGGGCCugCgcaGCCGGUAgcgacaucuCGGCGGg -3'
miRNA:   3'- gCCg---CCCGGugG---CGGCCAU---------GCCGCCg -5'
23436 3' -65.8 NC_005259.1 + 63573 0.67 0.251864
Target:  5'- aCGaGCGGGauauaCGCCGCCuGGcuguucucguccuccAUGGCGGCc -3'
miRNA:   3'- -GC-CGCCCg----GUGGCGG-CCa--------------UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 62719 0.72 0.129595
Target:  5'- aGGCGGGggaucUCGCuCGaCCGGacCGGCGGCa -3'
miRNA:   3'- gCCGCCC-----GGUG-GC-GGCCauGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 61764 0.69 0.185664
Target:  5'- gCGGCGGcaaUCACCGCCGcauucugcacacCGGCGGCc -3'
miRNA:   3'- -GCCGCCc--GGUGGCGGCcau---------GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 61594 0.67 0.263295
Target:  5'- gCGGUGGGCCGgUGg-GGU-CGGCGGg -3'
miRNA:   3'- -GCCGCCCGGUgGCggCCAuGCCGCCg -5'
23436 3' -65.8 NC_005259.1 + 61053 0.67 0.269479
Target:  5'- gGGCGGcUCACCuuguGCCGGgcauCGGCauaGGCg -3'
miRNA:   3'- gCCGCCcGGUGG----CGGCCau--GCCG---CCG- -5'
23436 3' -65.8 NC_005259.1 + 60530 0.68 0.222664
Target:  5'- uGGcCGGGCCgggacgcaGCCGCucgucggcaugccCGGUGCcgacggucaGGCGGCc -3'
miRNA:   3'- gCC-GCCCGG--------UGGCG-------------GCCAUG---------CCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 60286 0.73 0.108109
Target:  5'- gGGC-GGCCAucgUCGUCGGUGCGGCcacggacGGCg -3'
miRNA:   3'- gCCGcCCGGU---GGCGGCCAUGCCG-------CCG- -5'
23436 3' -65.8 NC_005259.1 + 60145 0.72 0.126346
Target:  5'- gCGGCcuuGGCCGCCGCCucagcGGccucACgGGCGGCg -3'
miRNA:   3'- -GCCGc--CCGGUGGCGG-----CCa---UG-CCGCCG- -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.