miRNA display CGI


Results 1 - 20 of 29 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
26580 3' -59.5 NC_005357.1 + 29472 1.06 0.000417
Target:  5'- cGACGAAGCGCGCGGCCAGUUCCGCGUc -3'
miRNA:   3'- -CUGCUUCGCGCGCCGGUCAAGGCGCA- -5'
26580 3' -59.5 NC_005357.1 + 2338 0.66 0.435049
Target:  5'- --aGAAGUGCGUGGCgCGcGUgcgCCGCa- -3'
miRNA:   3'- cugCUUCGCGCGCCG-GU-CAa--GGCGca -5'
26580 3' -59.5 NC_005357.1 + 9333 0.66 0.422688
Target:  5'- cGGCGcGGCGgGCGGCggcauccuuuugCAGUUgcuugaugaugcggCCGCGUg -3'
miRNA:   3'- -CUGCuUCGCgCGCCG------------GUCAA--------------GGCGCA- -5'
26580 3' -59.5 NC_005357.1 + 9861 0.66 0.41612
Target:  5'- cGAUGAgcguggcaccGGCGCGCugcuucucGGCCAGg--CGCGUg -3'
miRNA:   3'- -CUGCU----------UCGCGCG--------CCGGUCaagGCGCA- -5'
26580 3' -59.5 NC_005357.1 + 30117 0.66 0.413324
Target:  5'- cGAUGAGGcCGCGCcagaacacgccgccGGCCuGcaCCGCGUc -3'
miRNA:   3'- -CUGCUUC-GCGCG--------------CCGGuCaaGGCGCA- -5'
26580 3' -59.5 NC_005357.1 + 3923 0.66 0.406846
Target:  5'- -uCGggGaCGCGCuGCCG--UCCGCGa -3'
miRNA:   3'- cuGCuuC-GCGCGcCGGUcaAGGCGCa -5'
26580 3' -59.5 NC_005357.1 + 6640 0.66 0.397704
Target:  5'- -----cGCGCGCuuGGCCGGagugUCCGCGc -3'
miRNA:   3'- cugcuuCGCGCG--CCGGUCa---AGGCGCa -5'
26580 3' -59.5 NC_005357.1 + 29590 0.67 0.379819
Target:  5'- cGCGcccAGGCGCGCGguuuGCCAGUugUCCaGCGc -3'
miRNA:   3'- cUGC---UUCGCGCGC----CGGUCA--AGG-CGCa -5'
26580 3' -59.5 NC_005357.1 + 8641 0.67 0.377183
Target:  5'- uGGCGAGGUcgccggccuucaucGCGCGGUCGGcauugcgugCCGCGc -3'
miRNA:   3'- -CUGCUUCG--------------CGCGCCGGUCaa-------GGCGCa -5'
26580 3' -59.5 NC_005357.1 + 27789 0.68 0.313835
Target:  5'- cACGAAGCGCGCG-CCGcgcagCCGCa- -3'
miRNA:   3'- cUGCUUCGCGCGCcGGUcaa--GGCGca -5'
26580 3' -59.5 NC_005357.1 + 9206 0.68 0.306225
Target:  5'- uGCucGGCgGCGCGGCgCAcGUUCUGCGg -3'
miRNA:   3'- cUGcuUCG-CGCGCCG-GU-CAAGGCGCa -5'
26580 3' -59.5 NC_005357.1 + 25481 0.68 0.28926
Target:  5'- cGAUGAgGGCGCGCucgugcuuggucagGGUCAGgcCCGCGa -3'
miRNA:   3'- -CUGCU-UCGCGCG--------------CCGGUCaaGGCGCa -5'
26580 3' -59.5 NC_005357.1 + 24005 0.69 0.2772
Target:  5'- uGGCGAaggugGGCGCGuCGGCCAaUUCaGCGa -3'
miRNA:   3'- -CUGCU-----UCGCGC-GCCGGUcAAGgCGCa -5'
26580 3' -59.5 NC_005357.1 + 28620 0.76 0.086458
Target:  5'- aACcGGGCGCGgaugaggcCGGCCAGUUCCGCGc -3'
miRNA:   3'- cUGcUUCGCGC--------GCCGGUCAAGGCGCa -5'
26580 3' -59.5 NC_005357.1 + 10022 0.68 0.298756
Target:  5'- aGACGuGGCGCGCGGCUuuuuUUCgGUGc -3'
miRNA:   3'- -CUGCuUCGCGCGCCGGuc--AAGgCGCa -5'
26580 3' -59.5 NC_005357.1 + 3003 0.69 0.284245
Target:  5'- gGACGAAG-GCGCGGCgGGUcauagCUGCu- -3'
miRNA:   3'- -CUGCUUCgCGCGCCGgUCAa----GGCGca -5'
26580 3' -59.5 NC_005357.1 + 14587 0.69 0.2772
Target:  5'- -uUGAgcAGCgGCGCGGCCGGcgccaCCGCGg -3'
miRNA:   3'- cuGCU--UCG-CGCGCCGGUCaa---GGCGCa -5'
26580 3' -59.5 NC_005357.1 + 14727 0.69 0.256903
Target:  5'- cGGCGAgccgcugccGGCGCGCGGCCuGUauUCCaaGa -3'
miRNA:   3'- -CUGCU---------UCGCGCGCCGGuCA--AGGcgCa -5'
26580 3' -59.5 NC_005357.1 + 21569 0.71 0.187669
Target:  5'- cACGgcGCGCGCcgucgugcagucGGUCAGUUcCCGCGa -3'
miRNA:   3'- cUGCuuCGCGCG------------CCGGUCAA-GGCGCa -5'
26580 3' -59.5 NC_005357.1 + 20439 0.66 0.435049
Target:  5'- cGACGAAacccgcacgcuGCGCGaaucCGGCUAucggucGUUCCGCGc -3'
miRNA:   3'- -CUGCUU-----------CGCGC----GCCGGU------CAAGGCGCa -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.