miRNA display CGI


Results 1 - 20 of 38 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
25723 3' -56.6 NC_005337.1 + 118791 0.66 0.888516
Target:  5'- cGGcGGcgcCGUCGUgccgcgCGCGCCGUCGGu- -3'
miRNA:   3'- aCC-CCuu-GCAGCA------GUGCGGCAGUCug -5'
25723 3' -56.6 NC_005337.1 + 21081 0.66 0.888516
Target:  5'- gUGGucccGGACGUCGUCgAUGUCGUacgGGACg -3'
miRNA:   3'- -ACCc---CUUGCAGCAG-UGCGGCAg--UCUG- -5'
25723 3' -56.6 NC_005337.1 + 117324 0.66 0.888516
Target:  5'- cGGGGAuCGcCGUCACGgUGgc-GACg -3'
miRNA:   3'- aCCCCUuGCaGCAGUGCgGCaguCUG- -5'
25723 3' -56.6 NC_005337.1 + 48573 0.66 0.881619
Target:  5'- -cGGGAGCuUCuG-CugGCCGUgCAGACg -3'
miRNA:   3'- acCCCUUGcAG-CaGugCGGCA-GUCUG- -5'
25723 3' -56.6 NC_005337.1 + 82505 0.66 0.880213
Target:  5'- cGGGGAACGccacggggcggcCGUCcaGCGCCagggCGGGCa -3'
miRNA:   3'- aCCCCUUGCa-----------GCAG--UGCGGca--GUCUG- -5'
25723 3' -56.6 NC_005337.1 + 5563 0.66 0.86717
Target:  5'- cGGGGAACGcag-CGCGCuCG-CAGAUc -3'
miRNA:   3'- aCCCCUUGCagcaGUGCG-GCaGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 6534 0.66 0.86717
Target:  5'- cGGcGGAcuugaaGUCGUUGCGCCGgaAGACu -3'
miRNA:   3'- aCC-CCUug----CAGCAGUGCGGCagUCUG- -5'
25723 3' -56.6 NC_005337.1 + 88232 0.66 0.86717
Target:  5'- aGGcGGGcugcugcgaagACGUCGUgcgugccggCGCGCCGgCGGGCg -3'
miRNA:   3'- aCC-CCU-----------UGCAGCA---------GUGCGGCaGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 81391 0.66 0.859627
Target:  5'- cGGGGAACGgg--CAcCGCCacuUCAGGCu -3'
miRNA:   3'- aCCCCUUGCagcaGU-GCGGc--AGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 91610 0.67 0.843935
Target:  5'- --aGGAgcGCGUCGuUCGCGCCa-CAGACa -3'
miRNA:   3'- accCCU--UGCAGC-AGUGCGGcaGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 115853 0.67 0.843935
Target:  5'- aGGcGGAGCGgcucUCGUUcuCGCCGUCcgAGAUg -3'
miRNA:   3'- aCC-CCUUGC----AGCAGu-GCGGCAG--UCUG- -5'
25723 3' -56.6 NC_005337.1 + 4718 0.67 0.843935
Target:  5'- gGGGGGACaucUCGUaCGCGUCGagaucaCGGACg -3'
miRNA:   3'- aCCCCUUGc--AGCA-GUGCGGCa-----GUCUG- -5'
25723 3' -56.6 NC_005337.1 + 117869 0.67 0.8358
Target:  5'- aGGGG-ACGgggCGUC-UGUCG-CAGACg -3'
miRNA:   3'- aCCCCuUGCa--GCAGuGCGGCaGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 105616 0.67 0.8358
Target:  5'- cGGGGccGGCGUgcCGUUcuGCaCCGUCGGGCu -3'
miRNA:   3'- aCCCC--UUGCA--GCAG--UGcGGCAGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 49582 0.67 0.834976
Target:  5'- cGGGGAA-GUCGUCcaccucgaacacgGCcCCGUCcGACg -3'
miRNA:   3'- aCCCCUUgCAGCAG-------------UGcGGCAGuCUG- -5'
25723 3' -56.6 NC_005337.1 + 33977 0.67 0.830829
Target:  5'- cGGGGGACGcagcccaggaugcgCGUCuccaGCGgCGUCAGGa -3'
miRNA:   3'- aCCCCUUGCa-------------GCAG----UGCgGCAGUCUg -5'
25723 3' -56.6 NC_005337.1 + 98485 0.67 0.827479
Target:  5'- aGGGGcGCGcCGgcgGCGuCCGUCAuGACa -3'
miRNA:   3'- aCCCCuUGCaGCag-UGC-GGCAGU-CUG- -5'
25723 3' -56.6 NC_005337.1 + 5885 0.67 0.818982
Target:  5'- gGGGGAcagGCGgaccacgCGgagCGCGUCG-CAGGCg -3'
miRNA:   3'- aCCCCU---UGCa------GCa--GUGCGGCaGUCUG- -5'
25723 3' -56.6 NC_005337.1 + 91810 0.67 0.810317
Target:  5'- cGGGGGGCGUCGUUgaACGCgaGggugCAcacGACg -3'
miRNA:   3'- aCCCCUUGCAGCAG--UGCGg-Ca---GU---CUG- -5'
25723 3' -56.6 NC_005337.1 + 120459 0.67 0.810317
Target:  5'- cGGGGcGCGcUCGagcgCGCGCUGgaucgcgCGGACa -3'
miRNA:   3'- aCCCCuUGC-AGCa---GUGCGGCa------GUCUG- -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.