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
27561 3' -55.8 NC_005882.1 + 126 0.71 0.329011
Target:  5'- -uCUGggGCaaGGCCcgCGAGGGCCGCg -3'
miRNA:   3'- gcGACuaCGcgCUGGa-GCUUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 660 0.66 0.607895
Target:  5'- aGCUcggGCGCGAgaUUGccGACCGCa -3'
miRNA:   3'- gCGAcuaCGCGCUggAGCuuCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 1367 0.66 0.56344
Target:  5'- aGCUGuuugcUGCGCGcuuCCUCGcGGccACCGUu -3'
miRNA:   3'- gCGACu----ACGCGCu--GGAGCuUC--UGGCG- -5'
27561 3' -55.8 NC_005882.1 + 3377 0.74 0.20043
Target:  5'- gCGCgGGcgcUGCGCGGCCUgGGcuACCGCg -3'
miRNA:   3'- -GCGaCU---ACGCGCUGGAgCUucUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 4190 1.13 0.000301
Target:  5'- aCGCUGAUGCGCGACCUCGAAGACCGCg -3'
miRNA:   3'- -GCGACUACGCGCUGGAGCUUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 4867 0.66 0.596725
Target:  5'- aGCUGccgGCGuCGACUggagCGcGGACCGg -3'
miRNA:   3'- gCGACua-CGC-GCUGGa---GCuUCUGGCg -5'
27561 3' -55.8 NC_005882.1 + 5321 0.66 0.584475
Target:  5'- aGCUucgGCGUGACCUuccgacuuuccggCGAGGcaACCGCc -3'
miRNA:   3'- gCGAcuaCGCGCUGGA-------------GCUUC--UGGCG- -5'
27561 3' -55.8 NC_005882.1 + 12066 0.68 0.467459
Target:  5'- cCGCUGgcGCGCGgacGCCgucagCGucguuGGugCGCg -3'
miRNA:   3'- -GCGACuaCGCGC---UGGa----GCu----UCugGCG- -5'
27561 3' -55.8 NC_005882.1 + 12366 0.69 0.427543
Target:  5'- gCGCUGAUcGCGauaGACCcagCccAGGCCGCc -3'
miRNA:   3'- -GCGACUA-CGCg--CUGGa--GcuUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 12610 0.66 0.574489
Target:  5'- aCGCcGGUGCGCuuGCCggcgacgCGAAGGUCGCc -3'
miRNA:   3'- -GCGaCUACGCGc-UGGa------GCUUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 13506 0.7 0.354146
Target:  5'- gCGCUGuacaacGCGCGGCC-CGAGGAagUCGUc -3'
miRNA:   3'- -GCGACua----CGCGCUGGaGCUUCU--GGCG- -5'
27561 3' -55.8 NC_005882.1 + 13587 0.67 0.515611
Target:  5'- gCGCUugaGGUGCGCaaggaacuggacuACCUCGccGAUCGCg -3'
miRNA:   3'- -GCGA---CUACGCGc------------UGGAGCuuCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 13774 0.69 0.417882
Target:  5'- aGCaGcgGCGUGcaacGCCUgcCGAAGGCCGUg -3'
miRNA:   3'- gCGaCuaCGCGC----UGGA--GCUUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 14287 0.66 0.585587
Target:  5'- cCGCUGcucuUGa-CGACCuugUCGAcGGCCGCg -3'
miRNA:   3'- -GCGACu---ACgcGCUGG---AGCUuCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 15686 0.66 0.596725
Target:  5'- aCGUccggGAUGCGCGGcacgcCCUUGAuGACCuGUa -3'
miRNA:   3'- -GCGa---CUACGCGCU-----GGAGCUuCUGG-CG- -5'
27561 3' -55.8 NC_005882.1 + 17271 0.67 0.498618
Target:  5'- uGcCUGAaGCGguCGACCUCGGcuACUGCa -3'
miRNA:   3'- gC-GACUaCGC--GCUGGAGCUucUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 17693 0.67 0.541523
Target:  5'- cCGUacugGAUGUacgugGCGAuCCUCGAcaGCCGCa -3'
miRNA:   3'- -GCGa---CUACG-----CGCU-GGAGCUucUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 17777 0.7 0.354146
Target:  5'- gGCUcggGCGCGugCggcugUCGAGGAUCGCc -3'
miRNA:   3'- gCGAcuaCGCGCugG-----AGCUUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 18185 0.66 0.585587
Target:  5'- gGCUG--GCGCGAUg-CGcAAGAUCGCg -3'
miRNA:   3'- gCGACuaCGCGCUGgaGC-UUCUGGCG- -5'
27561 3' -55.8 NC_005882.1 + 18334 0.66 0.56344
Target:  5'- aGCUGAc-CGCGGCCgcgucgcgUCGcAAGGCCGg -3'
miRNA:   3'- gCGACUacGCGCUGG--------AGC-UUCUGGCg -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.