miRNA display CGI


Results 1 - 20 of 62 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
11604 3' -56.7 NC_003085.1 + 554 0.68 0.498985
Target:  5'- aGgGCGGGGUGGccgucgaaGUGcAGGGCgAGCccccGCCg -3'
miRNA:   3'- -CgCGUUCCACC--------UAC-UCCUGgUCG----CGG- -5'
11604 3' -56.7 NC_003085.1 + 592 0.67 0.551704
Target:  5'- nCGCAGGGUGucuc--GACUGGCGCCg -3'
miRNA:   3'- cGCGUUCCACcuacucCUGGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 836 0.7 0.365646
Target:  5'- gGCGCAAGGUGa---AGGcauaCGGCGCCa -3'
miRNA:   3'- -CGCGUUCCACcuacUCCug--GUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 2336 0.68 0.498985
Target:  5'- aCGCAAGGUGGGccuUGcucccGuCCAGCGCg -3'
miRNA:   3'- cGCGUUCCACCU---ACuc---CuGGUCGCGg -5'
11604 3' -56.7 NC_003085.1 + 4652 0.67 0.562465
Target:  5'- cGCGCccccGGUGGcaGAGGcgaGCCuuucacGGCGCCg -3'
miRNA:   3'- -CGCGuu--CCACCuaCUCC---UGG------UCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 5265 0.73 0.246016
Target:  5'- gGCGCGuGGUGGGUGcGcGACgGGaCGCCc -3'
miRNA:   3'- -CGCGUuCCACCUACuC-CUGgUC-GCGG- -5'
11604 3' -56.7 NC_003085.1 + 5540 0.66 0.616945
Target:  5'- uGCGCGAaGUGcGcgcaaAGGGCCuGGCGCCg -3'
miRNA:   3'- -CGCGUUcCAC-Cuac--UCCUGG-UCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 6289 0.69 0.410435
Target:  5'- cGCGCGGcGGUGGAgcgacuGGAgCAG-GCCg -3'
miRNA:   3'- -CGCGUU-CCACCUacu---CCUgGUCgCGG- -5'
11604 3' -56.7 NC_003085.1 + 6616 0.7 0.35795
Target:  5'- cCGgGAGGUGGG-GAGacgaagacgcgcgccGCCAGCGCCg -3'
miRNA:   3'- cGCgUUCCACCUaCUCc--------------UGGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 7038 0.72 0.293879
Target:  5'- cGCGCGGGGUGGgcGAuGAgCCcGCGCg -3'
miRNA:   3'- -CGCGUUCCACCuaCUcCU-GGuCGCGg -5'
11604 3' -56.7 NC_003085.1 + 7506 0.67 0.541006
Target:  5'- aGCGCAGgugcgucucGGUGGcgGcaaguGGGGCCA-UGCCg -3'
miRNA:   3'- -CGCGUU---------CCACCuaC-----UCCUGGUcGCGG- -5'
11604 3' -56.7 NC_003085.1 + 7611 0.74 0.227565
Target:  5'- cCGCGAGGU------GGACCAGCGCCg -3'
miRNA:   3'- cGCGUUCCAccuacuCCUGGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 9049 0.82 0.059801
Target:  5'- cGCGCcuccgAAGGUGG-UGAGGaguuggaugccgGCCAGCGCCa -3'
miRNA:   3'- -CGCG-----UUCCACCuACUCC------------UGGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 9338 0.67 0.541006
Target:  5'- aCGCGcGGcGGcc-AGGACCAGCaGCCg -3'
miRNA:   3'- cGCGUuCCaCCuacUCCUGGUCG-CGG- -5'
11604 3' -56.7 NC_003085.1 + 9696 0.68 0.49589
Target:  5'- aGCGuCAGGGUgaugcGGAUGAGcuccucacgguccuuCCGGCGCUg -3'
miRNA:   3'- -CGC-GUUCCA-----CCUACUCcu-------------GGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 10151 0.67 0.573282
Target:  5'- uGCGCGGcGG-GGAguaccgcGAGGACCGG-GCg -3'
miRNA:   3'- -CGCGUU-CCaCCUa------CUCCUGGUCgCGg -5'
11604 3' -56.7 NC_003085.1 + 11340 0.73 0.258994
Target:  5'- cCGCGAGGUGGcgGAaGAacUCGGCGUCa -3'
miRNA:   3'- cGCGUUCCACCuaCUcCU--GGUCGCGG- -5'
11604 3' -56.7 NC_003085.1 + 11660 0.67 0.551704
Target:  5'- uGCGCcGGGUGGccGAGGAgguGGgGCUg -3'
miRNA:   3'- -CGCGuUCCACCuaCUCCUgg-UCgCGG- -5'
11604 3' -56.7 NC_003085.1 + 12681 0.67 0.562465
Target:  5'- uGCGCcugccuccGGGUGGAUGAc-GCCA-CGCCg -3'
miRNA:   3'- -CGCGu-------UCCACCUACUccUGGUcGCGG- -5'
11604 3' -56.7 NC_003085.1 + 13811 0.67 0.530379
Target:  5'- uGCGUgGAGGUGGcgccAUGAcGugCAGaCGCCg -3'
miRNA:   3'- -CGCG-UUCCACC----UACUcCugGUC-GCGG- -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.