miRNA display CGI


Results 1 - 20 of 45 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
31720 3' -52.2 NC_006938.1 + 50247 0.66 0.907397
Target:  5'- --aGGCCGggGUC---CGGC-GGGUCc -3'
miRNA:   3'- ucaUCGGCuuCAGuuuGCUGaCCCGG- -5'
31720 3' -52.2 NC_006938.1 + 54411 0.66 0.906729
Target:  5'- --cGGCCGGAGUCGAggccACcACUGuccucgcGGCCc -3'
miRNA:   3'- ucaUCGGCUUCAGUU----UGcUGAC-------CCGG- -5'
31720 3' -52.2 NC_006938.1 + 21121 0.66 0.900598
Target:  5'- gGGUuccGGCCGAGGgaguggCAGGCGucGCUccGGCCg -3'
miRNA:   3'- -UCA---UCGGCUUCa-----GUUUGC--UGAc-CCGG- -5'
31720 3' -52.2 NC_006938.1 + 45661 0.66 0.900598
Target:  5'- --aGGCCgGGAGgccgaGAACGGCUGGaGCg -3'
miRNA:   3'- ucaUCGG-CUUCag---UUUGCUGACC-CGg -5'
31720 3' -52.2 NC_006938.1 + 50890 0.66 0.899903
Target:  5'- --cGGCCGAGGcgugcUCAAcgccuuccgcgagGCGGCcgaGGGCCu -3'
miRNA:   3'- ucaUCGGCUUC-----AGUU-------------UGCUGa--CCCGG- -5'
31720 3' -52.2 NC_006938.1 + 34726 0.66 0.898505
Target:  5'- aGGgAGCgGGAGUCAGGCGAggcaCUGaccgugcgcgucgcGGCCc -3'
miRNA:   3'- -UCaUCGgCUUCAGUUUGCU----GAC--------------CCGG- -5'
31720 3' -52.2 NC_006938.1 + 53957 0.66 0.893525
Target:  5'- aGGUccAGCgGGAGUCAgccccGACGACgaacacccGGCCc -3'
miRNA:   3'- -UCA--UCGgCUUCAGU-----UUGCUGac------CCGG- -5'
31720 3' -52.2 NC_006938.1 + 52649 0.66 0.886182
Target:  5'- gGGUuucgAGCgGcg--CAAcaGCGACUGGGCCc -3'
miRNA:   3'- -UCA----UCGgCuucaGUU--UGCUGACCCGG- -5'
31720 3' -52.2 NC_006938.1 + 7587 0.66 0.878574
Target:  5'- -cUGGCCGAGG----GCGuCUcGGGCCg -3'
miRNA:   3'- ucAUCGGCUUCaguuUGCuGA-CCCGG- -5'
31720 3' -52.2 NC_006938.1 + 23515 0.67 0.870706
Target:  5'- uAGUAGCCGAcaccggacGUCAGGCcACUuGGCa -3'
miRNA:   3'- -UCAUCGGCUu-------CAGUUUGcUGAcCCGg -5'
31720 3' -52.2 NC_006938.1 + 26845 0.67 0.862586
Target:  5'- --cGGCaCGAAGaCAGACGACgagauccuGGCCg -3'
miRNA:   3'- ucaUCG-GCUUCaGUUUGCUGac------CCGG- -5'
31720 3' -52.2 NC_006938.1 + 43260 0.67 0.862586
Target:  5'- cGGUGGCCcug--CAGACGACUGG-CUu -3'
miRNA:   3'- -UCAUCGGcuucaGUUUGCUGACCcGG- -5'
31720 3' -52.2 NC_006938.1 + 42227 0.67 0.845617
Target:  5'- cGUuGCCGGAGUCGA-UGAUgagagugGGaGCCg -3'
miRNA:   3'- uCAuCGGCUUCAGUUuGCUGa------CC-CGG- -5'
31720 3' -52.2 NC_006938.1 + 16262 0.67 0.845617
Target:  5'- cAGUGGCaCGAcGUgccgGAGCG-CUGGGUCg -3'
miRNA:   3'- -UCAUCG-GCUuCAg---UUUGCuGACCCGG- -5'
31720 3' -52.2 NC_006938.1 + 10879 0.67 0.836786
Target:  5'- -aUAGCCGAcGUCccacuccccACGGguCUGGGCCc -3'
miRNA:   3'- ucAUCGGCUuCAGuu-------UGCU--GACCCGG- -5'
31720 3' -52.2 NC_006938.1 + 23755 0.67 0.836786
Target:  5'- cGUc-CCGGagGGUCAGACGGa-GGGCCg -3'
miRNA:   3'- uCAucGGCU--UCAGUUUGCUgaCCCGG- -5'
31720 3' -52.2 NC_006938.1 + 41832 0.68 0.827734
Target:  5'- --gGGCCGAcGGUCAAcacCGGCUcugucGGGCUg -3'
miRNA:   3'- ucaUCGGCU-UCAGUUu--GCUGA-----CCCGG- -5'
31720 3' -52.2 NC_006938.1 + 17050 0.68 0.827734
Target:  5'- gAGcGGCCGAGGUCAucgAGCaGCUGGcauuCCa -3'
miRNA:   3'- -UCaUCGGCUUCAGU---UUGcUGACCc---GG- -5'
31720 3' -52.2 NC_006938.1 + 23671 0.68 0.809012
Target:  5'- cGU-GCCGAAG-CAGcGCGACgucGGCCa -3'
miRNA:   3'- uCAuCGGCUUCaGUU-UGCUGac-CCGG- -5'
31720 3' -52.2 NC_006938.1 + 13379 0.68 0.799361
Target:  5'- gAGUAGCCGGuguucAGUCGAGCGAUguacGGa-- -3'
miRNA:   3'- -UCAUCGGCU-----UCAGUUUGCUGa---CCcgg -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.