miRNA display CGI


Results 1 - 20 of 24 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
27682 3' -56.4 NC_005882.1 + 4879 0.66 0.549944
Target:  5'- --gGCCgcugucGAAGcuGCCGGCGUCGAc -3'
miRNA:   3'- cugCGGauguu-CUUC--CGGCCGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 20788 0.66 0.549944
Target:  5'- cACGCUgcGCAAGaAAGGCaaucCGGuCGUCGAc -3'
miRNA:   3'- cUGCGGa-UGUUC-UUCCG----GCC-GCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 17153 0.66 0.548844
Target:  5'- aGCGCCUGCGcgucggcauucAGGucgcgcgcggacaAGGUguucagugCGGCGUCGAg -3'
miRNA:   3'- cUGCGGAUGU-----------UCU-------------UCCG--------GCCGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 26198 0.66 0.53898
Target:  5'- cGGCGCCUucGCGGccGAcuucgAGGCUGGCGaUGAu -3'
miRNA:   3'- -CUGCGGA--UGUU--CU-----UCCGGCCGCaGCU- -5'
27682 3' -56.4 NC_005882.1 + 24982 0.66 0.53898
Target:  5'- cGACGCCgcggaGCGGGAAaucaaGCgGcGCGUCGAc -3'
miRNA:   3'- -CUGCGGa----UGUUCUUc----CGgC-CGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 19076 0.66 0.535705
Target:  5'- cGACGCCgagaGAGAAGcgacccagccccacGCCGGCG-CGu -3'
miRNA:   3'- -CUGCGGaug-UUCUUC--------------CGGCCGCaGCu -5'
27682 3' -56.4 NC_005882.1 + 17208 0.66 0.517286
Target:  5'- gGACGCgCUGCAGGAAcGGCUugcccGCG-CGAu -3'
miRNA:   3'- -CUGCG-GAUGUUCUU-CCGGc----CGCaGCU- -5'
27682 3' -56.4 NC_005882.1 + 6259 0.66 0.50657
Target:  5'- cGCGUCaACGAGcuuuGaCCGGCGUCGAc -3'
miRNA:   3'- cUGCGGaUGUUCuu--CcGGCCGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 10397 0.67 0.47502
Target:  5'- cGACGCaagcacugACGAGccGGCCGGCGauUCa- -3'
miRNA:   3'- -CUGCGga------UGUUCuuCCGGCCGC--AGcu -5'
27682 3' -56.4 NC_005882.1 + 22736 0.67 0.454541
Target:  5'- aGCGCUUGCGGGAucgugaaGCCGGCGagcugCGGg -3'
miRNA:   3'- cUGCGGAUGUUCUuc-----CGGCCGCa----GCU- -5'
27682 3' -56.4 NC_005882.1 + 12444 0.68 0.434549
Target:  5'- --gGCC-GCGuGccGGCCGGCGUUGAa -3'
miRNA:   3'- cugCGGaUGUuCuuCCGGCCGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 19275 0.68 0.434549
Target:  5'- uGACGUCgcGCAGgcccuuGAGGGCCGGCGgcugCGc -3'
miRNA:   3'- -CUGCGGa-UGUU------CUUCCGGCCGCa---GCu -5'
27682 3' -56.4 NC_005882.1 + 18170 0.68 0.405543
Target:  5'- --aGCCggcCAucAGAAGGCUGGCG-CGAu -3'
miRNA:   3'- cugCGGau-GU--UCUUCCGGCCGCaGCU- -5'
27682 3' -56.4 NC_005882.1 + 15496 0.68 0.396149
Target:  5'- cGACuUCUGCGAGGuauuGGCCGuugccccgcGCGUCGAa -3'
miRNA:   3'- -CUGcGGAUGUUCUu---CCGGC---------CGCAGCU- -5'
27682 3' -56.4 NC_005882.1 + 15257 0.68 0.396149
Target:  5'- aGCGCCgugaGC-AGcGGGCCGaGCGUCGc -3'
miRNA:   3'- cUGCGGa---UGuUCuUCCGGC-CGCAGCu -5'
27682 3' -56.4 NC_005882.1 + 31681 0.68 0.396149
Target:  5'- gGACGgCUACGAGGAGGaaaCGGaCGaUCGu -3'
miRNA:   3'- -CUGCgGAUGUUCUUCCg--GCC-GC-AGCu -5'
27682 3' -56.4 NC_005882.1 + 27676 0.7 0.334446
Target:  5'- uGAUGCgCUGCAGGGAcgccgcggccgcGGCCuGCGUCGc -3'
miRNA:   3'- -CUGCG-GAUGUUCUU------------CCGGcCGCAGCu -5'
27682 3' -56.4 NC_005882.1 + 23227 0.7 0.326226
Target:  5'- aGGCGCUgGCcGGGcgcGGGCCGGCGggcaCGAu -3'
miRNA:   3'- -CUGCGGaUGuUCU---UCCGGCCGCa---GCU- -5'
27682 3' -56.4 NC_005882.1 + 16017 0.7 0.318158
Target:  5'- uGCGCCgccGCAAGgcGGCCGugaaaGCGcUCGAa -3'
miRNA:   3'- cUGCGGa--UGUUCuuCCGGC-----CGC-AGCU- -5'
27682 3' -56.4 NC_005882.1 + 2080 0.71 0.287392
Target:  5'- cGGCGCagcGCGAGcacgcGGCCGGUGUUGAu -3'
miRNA:   3'- -CUGCGga-UGUUCuu---CCGGCCGCAGCU- -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.