miRNA display CGI


Results 1 - 20 of 41 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
27236 3' -56.2 NC_005832.1 + 98181 1.08 0.002045
Target:  5'- gACAGGCUCAGGCCCACCGUGGAAAAGc -3'
miRNA:   3'- -UGUCCGAGUCCGGGUGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 42498 0.78 0.218914
Target:  5'- aGCAGGCcgaagacgccgaUCGGGCCU-CUGUGGAAGAGg -3'
miRNA:   3'- -UGUCCG------------AGUCCGGGuGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 46198 0.75 0.339121
Target:  5'- --cGGCUCAGGCCCuCC-UGGAGGAc -3'
miRNA:   3'- uguCCGAGUCCGGGuGGcACCUUUUc -5'
27236 3' -56.2 NC_005832.1 + 28052 0.71 0.510589
Target:  5'- --uGGCUCAGGCCCugUccagggugGUGGGGAc- -3'
miRNA:   3'- uguCCGAGUCCGGGugG--------CACCUUUuc -5'
27236 3' -56.2 NC_005832.1 + 85344 0.71 0.520667
Target:  5'- uCA-GCUCAGaGUCCACCuUGGAAAAGa -3'
miRNA:   3'- uGUcCGAGUC-CGGGUGGcACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 65581 0.7 0.582536
Target:  5'- gGCAGGaC-CcuGCCCGCCG-GGggGAGa -3'
miRNA:   3'- -UGUCC-GaGucCGGGUGGCaCCuuUUC- -5'
27236 3' -56.2 NC_005832.1 + 27032 0.7 0.582536
Target:  5'- cACGucCUCAGGCCCGcgaaacguCCGUGGGAGAa -3'
miRNA:   3'- -UGUccGAGUCCGGGU--------GGCACCUUUUc -5'
27236 3' -56.2 NC_005832.1 + 72772 0.7 0.603537
Target:  5'- uCGGGCcccgCGGGCCCAUCG-GGAc--- -3'
miRNA:   3'- uGUCCGa---GUCCGGGUGGCaCCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 104962 0.69 0.614075
Target:  5'- -aAGGCUCAGGCCU-CCGaggUGGAc--- -3'
miRNA:   3'- ugUCCGAGUCCGGGuGGC---ACCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 40729 0.69 0.624627
Target:  5'- cGCGGGgUaCGGGUCCACCG-GGguGGGu -3'
miRNA:   3'- -UGUCCgA-GUCCGGGUGGCaCCuuUUC- -5'
27236 3' -56.2 NC_005832.1 + 13251 0.69 0.624627
Target:  5'- uGCAGGaagCAGGCCCuga-UGGAAAAGg -3'
miRNA:   3'- -UGUCCga-GUCCGGGuggcACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 37946 0.69 0.624627
Target:  5'- cCAGGCgugccaGGGCcguaccccaucgCCACCGUGGGAGGa -3'
miRNA:   3'- uGUCCGag----UCCG------------GGUGGCACCUUUUc -5'
27236 3' -56.2 NC_005832.1 + 50979 0.69 0.645741
Target:  5'- uCGGGCUaaCAGGUCCGCgCGgaaaaaaGGGAGAGa -3'
miRNA:   3'- uGUCCGA--GUCCGGGUG-GCa------CCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 32313 0.69 0.656286
Target:  5'- -uGGGCUCcGGaCCCcauGCCGUGGAc--- -3'
miRNA:   3'- ugUCCGAGuCC-GGG---UGGCACCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 10327 0.69 0.66681
Target:  5'- gACAGGCUCaAGGCCa---G-GGGAGAGg -3'
miRNA:   3'- -UGUCCGAG-UCCGGguggCaCCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 6648 0.69 0.66681
Target:  5'- -gGGGCUCcuGGGCCagcaguaCGUGGGAGGGu -3'
miRNA:   3'- ugUCCGAG--UCCGGgug----GCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 9022 0.68 0.687758
Target:  5'- uGCAGGCcuccuugcuggUCAGGUCagaggACuCGUGGAGGGGa -3'
miRNA:   3'- -UGUCCG-----------AGUCCGGg----UG-GCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 75734 0.68 0.698164
Target:  5'- gACAGGCagCAcacugcGGUCCugucugcgGCCGUGGGGAGGu -3'
miRNA:   3'- -UGUCCGa-GU------CCGGG--------UGGCACCUUUUC- -5'
27236 3' -56.2 NC_005832.1 + 80277 0.68 0.70851
Target:  5'- cCAGGaCUCuAGGCCCGuguaCGUGGAc--- -3'
miRNA:   3'- uGUCC-GAG-UCCGGGUg---GCACCUuuuc -5'
27236 3' -56.2 NC_005832.1 + 90975 0.68 0.718788
Target:  5'- uACAGGUUCGacGGCCUGaCGUGGGuAGAGu -3'
miRNA:   3'- -UGUCCGAGU--CCGGGUgGCACCU-UUUC- -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.