miRNA display CGI


Results 1 - 20 of 43 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
19416 3' -64.3 NC_004685.1 + 4110 0.66 0.3734
Target:  5'- -cGAGCCGCGCGaaggcCAgcccgucgacuacacCGGGccGGCUGUCg -3'
miRNA:   3'- gcCUCGGCGCGC-----GU---------------GCCCu-CCGACGG- -5'
19416 3' -64.3 NC_004685.1 + 34261 0.66 0.3734
Target:  5'- aCGGAggucaggucgaccacGCCGCGCuuGCGCGGaucGCUGCg -3'
miRNA:   3'- -GCCU---------------CGGCGCG--CGUGCCcucCGACGg -5'
19416 3' -64.3 NC_004685.1 + 68513 0.66 0.370168
Target:  5'- gCGGGGCCGCcagucCGaUGCGGGGcuguGGCcccgGCCa -3'
miRNA:   3'- -GCCUCGGCGc----GC-GUGCCCU----CCGa---CGG- -5'
19416 3' -64.3 NC_004685.1 + 69557 0.66 0.362173
Target:  5'- cCGGcAGCCGCGCccGCGCcGGucGCcGCUa -3'
miRNA:   3'- -GCC-UCGGCGCG--CGUGcCCucCGaCGG- -5'
19416 3' -64.3 NC_004685.1 + 26586 0.66 0.362173
Target:  5'- gCGaAGCUGCGCGCcgGCGGcaagucGGCgGCCg -3'
miRNA:   3'- -GCcUCGGCGCGCG--UGCCcu----CCGaCGG- -5'
19416 3' -64.3 NC_004685.1 + 3833 0.66 0.362173
Target:  5'- gGGAcGCCGCuggaGUaCGCGGcGAGGUggGCCa -3'
miRNA:   3'- gCCU-CGGCG----CGcGUGCC-CUCCGa-CGG- -5'
19416 3' -64.3 NC_004685.1 + 30252 0.66 0.362173
Target:  5'- cCGGucCCGCGauaccuGCgAUGGccGGGGCUGCCg -3'
miRNA:   3'- -GCCucGGCGCg-----CG-UGCC--CUCCGACGG- -5'
19416 3' -64.3 NC_004685.1 + 16551 0.66 0.362173
Target:  5'- aGcGAGCCGguCGCGC-CGGGcAGGCcuaCCa -3'
miRNA:   3'- gC-CUCGGC--GCGCGuGCCC-UCCGac-GG- -5'
19416 3' -64.3 NC_004685.1 + 17228 0.66 0.346547
Target:  5'- -cGAGCaGCGCGCgugGCGGGAGuucGCCg -3'
miRNA:   3'- gcCUCGgCGCGCG---UGCCCUCcgaCGG- -5'
19416 3' -64.3 NC_004685.1 + 17976 0.66 0.346547
Target:  5'- uGGA-UCGCGgGC-CGGcaguGGCUGCCg -3'
miRNA:   3'- gCCUcGGCGCgCGuGCCcu--CCGACGG- -5'
19416 3' -64.3 NC_004685.1 + 35210 0.66 0.341954
Target:  5'- --uGGUCGCGCGCACGGuGcggauggagacgugcGGcGCUGUCa -3'
miRNA:   3'- gccUCGGCGCGCGUGCC-C---------------UC-CGACGG- -5'
19416 3' -64.3 NC_004685.1 + 22387 0.66 0.338916
Target:  5'- uGGGGCgCGaCGaCGaacCGGGAGGCccGCCc -3'
miRNA:   3'- gCCUCG-GC-GC-GCgu-GCCCUCCGa-CGG- -5'
19416 3' -64.3 NC_004685.1 + 30357 0.66 0.33816
Target:  5'- uCGGcGCCGCGC-CA--GGAGGCagauccuUGCCg -3'
miRNA:   3'- -GCCuCGGCGCGcGUgcCCUCCG-------ACGG- -5'
19416 3' -64.3 NC_004685.1 + 18914 0.66 0.331409
Target:  5'- aCGcGcGCCGCGacgGCGCGGGcgagaugcuGGCgGCCa -3'
miRNA:   3'- -GC-CuCGGCGCg--CGUGCCCu--------CCGaCGG- -5'
19416 3' -64.3 NC_004685.1 + 11546 0.67 0.30261
Target:  5'- uCGGcGCUGCGCuGCGCuGGGcaucgugucGGCUGUCc -3'
miRNA:   3'- -GCCuCGGCGCG-CGUG-CCCu--------CCGACGG- -5'
19416 3' -64.3 NC_004685.1 + 62618 0.67 0.295035
Target:  5'- gCGGGGUgGCcauCGCGguguccgagccguCGGGAGGCccgGCCg -3'
miRNA:   3'- -GCCUCGgCGc--GCGU-------------GCCCUCCGa--CGG- -5'
19416 3' -64.3 NC_004685.1 + 68448 0.67 0.288949
Target:  5'- gCGGGGCCGCcagucCG-AUGGGcGGCcGCCa -3'
miRNA:   3'- -GCCUCGGCGc----GCgUGCCCuCCGaCGG- -5'
19416 3' -64.3 NC_004685.1 + 56542 0.68 0.269373
Target:  5'- gGuGGGCCGUGgGUugGguucagccGGAGGCUGUa -3'
miRNA:   3'- gC-CUCGGCGCgCGugC--------CCUCCGACGg -5'
19416 3' -64.3 NC_004685.1 + 22619 0.68 0.263089
Target:  5'- gCGGAGUC-CGCGUACGGGucGCc-CCa -3'
miRNA:   3'- -GCCUCGGcGCGCGUGCCCucCGacGG- -5'
19416 3' -64.3 NC_004685.1 + 40640 0.68 0.263089
Target:  5'- gGcGAGCaucuGCGCG-ACGGGAcGCUGCUg -3'
miRNA:   3'- gC-CUCGg---CGCGCgUGCCCUcCGACGG- -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.