miRNA display CGI


Results 1 - 20 of 25 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
27042 5' -60.8 NC_005832.1 + 10347 0.66 0.620215
Target:  5'- cCUGGaGGGCGGGuucccaugacAGGCucaAGGCCAgggGAGa -3'
miRNA:   3'- uGGCC-CCUGCUC----------UCCG---UCCGGUa--CUC- -5'
27042 5' -60.8 NC_005832.1 + 52365 0.66 0.610045
Target:  5'- uCCaGGGGAgGAGGgucguGGCuccuGGCCGUGGc -3'
miRNA:   3'- uGG-CCCCUgCUCU-----CCGu---CCGGUACUc -5'
27042 5' -60.8 NC_005832.1 + 65465 0.66 0.599892
Target:  5'- aACCGuGGGCGAGAGG-GGGCCc---- -3'
miRNA:   3'- -UGGCcCCUGCUCUCCgUCCGGuacuc -5'
27042 5' -60.8 NC_005832.1 + 43285 0.66 0.598878
Target:  5'- cCCGuGGGguucguGCGGGAGGCcAGGCUcugucuccucggcGUGAGc -3'
miRNA:   3'- uGGC-CCC------UGCUCUCCG-UCCGG-------------UACUC- -5'
27042 5' -60.8 NC_005832.1 + 94021 0.66 0.589762
Target:  5'- cGCC-GGGACGAGGGGCcgacauGCCggGAa -3'
miRNA:   3'- -UGGcCCCUGCUCUCCGuc----CGGuaCUc -5'
27042 5' -60.8 NC_005832.1 + 67610 0.66 0.589762
Target:  5'- cUCGGGGACuggacAGAGGCccuGGGUCAggGAGc -3'
miRNA:   3'- uGGCCCCUGc----UCUCCG---UCCGGUa-CUC- -5'
27042 5' -60.8 NC_005832.1 + 37552 0.66 0.579663
Target:  5'- aGCCGGGGu----GGGCgAGGCCGUaGAGu -3'
miRNA:   3'- -UGGCCCCugcucUCCG-UCCGGUA-CUC- -5'
27042 5' -60.8 NC_005832.1 + 95153 0.66 0.579663
Target:  5'- cACCGucguguGGGACGAGuGGGCAGcggguuccguGCCcaAUGAGg -3'
miRNA:   3'- -UGGC------CCCUGCUC-UCCGUC----------CGG--UACUC- -5'
27042 5' -60.8 NC_005832.1 + 90352 0.67 0.559582
Target:  5'- -gCGGGGACGAuGGGCAaGGaggaCGUGGa -3'
miRNA:   3'- ugGCCCCUGCUcUCCGU-CCg---GUACUc -5'
27042 5' -60.8 NC_005832.1 + 29896 0.68 0.491155
Target:  5'- -gCGGGGGCGGcGGuGgAGGCCAagaUGAGg -3'
miRNA:   3'- ugGCCCCUGCUcUC-CgUCCGGU---ACUC- -5'
27042 5' -60.8 NC_005832.1 + 91974 0.68 0.472304
Target:  5'- cGCUGcGGugGcGAGGUGGGCCAgGAGc -3'
miRNA:   3'- -UGGCcCCugCuCUCCGUCCGGUaCUC- -5'
27042 5' -60.8 NC_005832.1 + 844 0.69 0.444733
Target:  5'- cGCCGaguGGGACucGAGGgGGGCCccuuacGUGAGg -3'
miRNA:   3'- -UGGC---CCCUGcuCUCCgUCCGG------UACUC- -5'
27042 5' -60.8 NC_005832.1 + 66613 0.69 0.421584
Target:  5'- gGCUGGaggacucgagggccuGGACGAGGGGCAGGaaCGUGGc -3'
miRNA:   3'- -UGGCC---------------CCUGCUCUCCGUCCg-GUACUc -5'
27042 5' -60.8 NC_005832.1 + 67379 0.69 0.39833
Target:  5'- cACCGGGua-GAGAGGCagcccccucucccaGGGCC-UGAGg -3'
miRNA:   3'- -UGGCCCcugCUCUCCG--------------UCCGGuACUC- -5'
27042 5' -60.8 NC_005832.1 + 60292 0.7 0.392437
Target:  5'- cGCUGGGGucucugccCGAGGGuuccacguccguGguGGCCGUGAGg -3'
miRNA:   3'- -UGGCCCCu-------GCUCUC------------CguCCGGUACUC- -5'
27042 5' -60.8 NC_005832.1 + 75771 0.7 0.359869
Target:  5'- cGCUGcGGGCGAGAGGUccauuggucugGGcGCCAUGGGc -3'
miRNA:   3'- -UGGCcCCUGCUCUCCG-----------UC-CGGUACUC- -5'
27042 5' -60.8 NC_005832.1 + 80761 0.71 0.33671
Target:  5'- gGuuGGGGAUGAGGacCGGGUCGUGAGu -3'
miRNA:   3'- -UggCCCCUGCUCUccGUCCGGUACUC- -5'
27042 5' -60.8 NC_005832.1 + 10957 0.71 0.329235
Target:  5'- uGCCGGGGAggugcUGGGAGGCAccGG-CAUGAc -3'
miRNA:   3'- -UGGCCCCU-----GCUCUCCGU--CCgGUACUc -5'
27042 5' -60.8 NC_005832.1 + 90024 0.71 0.314656
Target:  5'- gGCUGGGaGGaggaGuGAGGUGGGCCGUGAu -3'
miRNA:   3'- -UGGCCC-CUg---CuCUCCGUCCGGUACUc -5'
27042 5' -60.8 NC_005832.1 + 39340 0.71 0.314656
Target:  5'- cCCGGGGACGAcggcgaccaGGGGCccagGGGCCcagGGGa -3'
miRNA:   3'- uGGCCCCUGCU---------CUCCG----UCCGGua-CUC- -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.