miRNA display CGI


Results 1 - 20 of 28 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
19608 5' -62.3 NC_004686.1 + 12882 0.65 0.430161
Target:  5'- aCCGCGGUCGGCaG-GGUgucuaucuguccgaGGGUGGGGu -3'
miRNA:   3'- -GGCGCUAGCCGgCgCCG--------------CUCGCCUCu -5'
19608 5' -62.3 NC_004686.1 + 48436 0.66 0.42388
Target:  5'- gCGCGAggacaaguacUGGCCuuCGGCGcuguucucGGCGGAGAu -3'
miRNA:   3'- gGCGCUa---------GCCGGc-GCCGC--------UCGCCUCU- -5'
19608 5' -62.3 NC_004686.1 + 30035 0.66 0.42388
Target:  5'- gCCGgGGUCGG-UGUGGCG-GCGGc-- -3'
miRNA:   3'- -GGCgCUAGCCgGCGCCGCuCGCCucu -5'
19608 5' -62.3 NC_004686.1 + 5910 0.66 0.421205
Target:  5'- gCGCGucuggccgguggcuAUCGGCUGcCGGCGAaacgugcaGCGGcGAa -3'
miRNA:   3'- gGCGC--------------UAGCCGGC-GCCGCU--------CGCCuCU- -5'
19608 5' -62.3 NC_004686.1 + 9042 0.66 0.415003
Target:  5'- -gGCGAUCaGGUCGCGGaCGucaccccaGGAGAu -3'
miRNA:   3'- ggCGCUAG-CCGGCGCC-GCucg-----CCUCU- -5'
19608 5' -62.3 NC_004686.1 + 33867 0.66 0.406241
Target:  5'- aCGCGAaggcCGGCCGCGa-GGGCGaGGAu -3'
miRNA:   3'- gGCGCUa---GCCGGCGCcgCUCGCcUCU- -5'
19608 5' -62.3 NC_004686.1 + 44794 0.66 0.38907
Target:  5'- uCCGgGAUUGGuuGCGGCG-GUGa--- -3'
miRNA:   3'- -GGCgCUAGCCggCGCCGCuCGCcucu -5'
19608 5' -62.3 NC_004686.1 + 38657 0.66 0.380665
Target:  5'- gCGCGAUCGGCCcuuCGGgGAcuccaGCGucGAGGa -3'
miRNA:   3'- gGCGCUAGCCGGc--GCCgCU-----CGC--CUCU- -5'
19608 5' -62.3 NC_004686.1 + 9930 0.67 0.372382
Target:  5'- -aGCGAUC-GCCGCGGCGuccGCGa--- -3'
miRNA:   3'- ggCGCUAGcCGGCGCCGCu--CGCcucu -5'
19608 5' -62.3 NC_004686.1 + 31847 0.67 0.359386
Target:  5'- aCUGaCGAuagUCGGgCGUGGCGGGCguugugugauucgguGGGGAu -3'
miRNA:   3'- -GGC-GCU---AGCCgGCGCCGCUCG---------------CCUCU- -5'
19608 5' -62.3 NC_004686.1 + 49917 0.67 0.353802
Target:  5'- aCCGCGAUCGGUgagcaacacgUGCuGGCGAaaaccaucucccauGCGGGc- -3'
miRNA:   3'- -GGCGCUAGCCG----------GCG-CCGCU--------------CGCCUcu -5'
19608 5' -62.3 NC_004686.1 + 22349 0.67 0.348278
Target:  5'- uUCG-GAUCGGCgGgCGGC-AGCGGuGAc -3'
miRNA:   3'- -GGCgCUAGCCGgC-GCCGcUCGCCuCU- -5'
19608 5' -62.3 NC_004686.1 + 6322 0.67 0.340495
Target:  5'- uUCGCGGUCGacaCCGUGGCcuGCGG-GAa -3'
miRNA:   3'- -GGCGCUAGCc--GGCGCCGcuCGCCuCU- -5'
19608 5' -62.3 NC_004686.1 + 49879 0.67 0.340495
Target:  5'- gCCgGCGAcgaaGGCCGCGGCGAaCGaucaucGAGAu -3'
miRNA:   3'- -GG-CGCUag--CCGGCGCCGCUcGC------CUCU- -5'
19608 5' -62.3 NC_004686.1 + 21886 0.67 0.332838
Target:  5'- aUCGCua-CGGCgGCGGCGguGGCGGuGGc -3'
miRNA:   3'- -GGCGcuaGCCGgCGCCGC--UCGCCuCU- -5'
19608 5' -62.3 NC_004686.1 + 54143 0.67 0.330566
Target:  5'- aCGCGAU--GUCGCGGCGAacagcgcuggugugGCGGGGc -3'
miRNA:   3'- gGCGCUAgcCGGCGCCGCU--------------CGCCUCu -5'
19608 5' -62.3 NC_004686.1 + 1501 0.68 0.317173
Target:  5'- uCCGUGucgguaaGUCGGCgauugaGCGGCuuGUGGAGAa -3'
miRNA:   3'- -GGCGC-------UAGCCGg-----CGCCGcuCGCCUCU- -5'
19608 5' -62.3 NC_004686.1 + 12114 0.68 0.296464
Target:  5'- aCCGCGGcuUCGGCUGCcgcaacGGCGGGCa---- -3'
miRNA:   3'- -GGCGCU--AGCCGGCG------CCGCUCGccucu -5'
19608 5' -62.3 NC_004686.1 + 3736 0.68 0.296464
Target:  5'- gCCGCca-UGGCgGCGGCG-GCGGAc- -3'
miRNA:   3'- -GGCGcuaGCCGgCGCCGCuCGCCUcu -5'
19608 5' -62.3 NC_004686.1 + 25585 0.69 0.269647
Target:  5'- uCCGC---CGGCCuGCGGUacauGGCGGAGAu -3'
miRNA:   3'- -GGCGcuaGCCGG-CGCCGc---UCGCCUCU- -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.