miRNA display CGI


Results 1 - 20 of 31 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
2630 3' -61.8 NC_001491.2 + 2312 0.67 0.543757
Target:  5'- aGCCgCCGGG-GCGGGaGGCCGGGa--- -3'
miRNA:   3'- -UGG-GGUUCuCGCUCgCCGGCCCgaaa -5'
2630 3' -61.8 NC_001491.2 + 2715 0.67 0.553542
Target:  5'- gGCCCgGGGAGCcuGGUGGCCcgGGGUg-- -3'
miRNA:   3'- -UGGGgUUCUCGc-UCGCCGG--CCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 2779 0.67 0.567326
Target:  5'- gGCCCCGAGGGaucguaccccCGGGCggacgaggagaaggaGGCCGaGGCUc- -3'
miRNA:   3'- -UGGGGUUCUC----------GCUCG---------------CCGGC-CCGAaa -5'
2630 3' -61.8 NC_001491.2 + 2961 0.71 0.319773
Target:  5'- gGCCgCCugagGGGAGCGGgccuucuGCGGCUGGGCUg- -3'
miRNA:   3'- -UGG-GG----UUCUCGCU-------CGCCGGCCCGAaa -5'
2630 3' -61.8 NC_001491.2 + 3002 0.72 0.267063
Target:  5'- cCCCCGGGAGCGGGCguuugucuggguGGCCcGGCa-- -3'
miRNA:   3'- uGGGGUUCUCGCUCG------------CCGGcCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 3666 0.66 0.58716
Target:  5'- uCCCCGAGcucccugagucugaaGGCGGaCGGCCuGGGCg-- -3'
miRNA:   3'- uGGGGUUC---------------UCGCUcGCCGG-CCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 3712 0.73 0.237475
Target:  5'- uCCCC-GGAGCGGccGCGGCCGcGGCa-- -3'
miRNA:   3'- uGGGGuUCUCGCU--CGCCGGC-CCGaaa -5'
2630 3' -61.8 NC_001491.2 + 4765 0.67 0.560422
Target:  5'- aGCCCCcgGAGGGaggaggccuccuccCGGGCGGCUGGGa--- -3'
miRNA:   3'- -UGGGG--UUCUC--------------GCUCGCCGGCCCgaaa -5'
2630 3' -61.8 NC_001491.2 + 4863 0.69 0.440932
Target:  5'- aGCUCUucGGGGUGgcggccccAGCGGCCGGGCg-- -3'
miRNA:   3'- -UGGGGu-UCUCGC--------UCGCCGGCCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 4913 0.69 0.440932
Target:  5'- gGCCCgGgAGAGCcGGCGGCCgacgGGGUUUUc -3'
miRNA:   3'- -UGGGgU-UCUCGcUCGCCGG----CCCGAAA- -5'
2630 3' -61.8 NC_001491.2 + 10122 0.66 0.583182
Target:  5'- cGCUCC-GGAGCG-GC-GCCGGGCc-- -3'
miRNA:   3'- -UGGGGuUCUCGCuCGcCGGCCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 12475 0.66 0.593138
Target:  5'- cUCCCGcccGGCGGGCGGC-GGGCg-- -3'
miRNA:   3'- uGGGGUuc-UCGCUCGCCGgCCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 24618 0.66 0.583182
Target:  5'- cGCCCCGGG-GCGGccGCuGCCGcGGCg-- -3'
miRNA:   3'- -UGGGGUUCuCGCU--CGcCGGC-CCGaaa -5'
2630 3' -61.8 NC_001491.2 + 24737 0.74 0.221072
Target:  5'- cGCCCCGGGGacccGCGGGCGcccgccgcccGCCGGGCg-- -3'
miRNA:   3'- -UGGGGUUCU----CGCUCGC----------CGGCCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 33195 0.7 0.389681
Target:  5'- uGCCCCAcaucGGGGaCGccauGGCGGCCGGGa--- -3'
miRNA:   3'- -UGGGGU----UCUC-GC----UCGCCGGCCCgaaa -5'
2630 3' -61.8 NC_001491.2 + 33699 0.66 0.603121
Target:  5'- cUCCCGAG-GCGcuguGCuccaacccGGCCGGGCUg- -3'
miRNA:   3'- uGGGGUUCuCGCu---CG--------CCGGCCCGAaa -5'
2630 3' -61.8 NC_001491.2 + 34363 0.75 0.186532
Target:  5'- cGCCCCAGGGGCaaGAGCGGCaagCGGcGCUc- -3'
miRNA:   3'- -UGGGGUUCUCG--CUCGCCG---GCC-CGAaa -5'
2630 3' -61.8 NC_001491.2 + 34397 0.71 0.350061
Target:  5'- aGCCCCuGGAGCcGGCGGCCcaGGCc-- -3'
miRNA:   3'- -UGGGGuUCUCGcUCGCCGGc-CCGaaa -5'
2630 3' -61.8 NC_001491.2 + 34493 0.67 0.514769
Target:  5'- cCCCCAAGcGCaGGGUGGCCaccccGGGCc-- -3'
miRNA:   3'- uGGGGUUCuCG-CUCGCCGG-----CCCGaaa -5'
2630 3' -61.8 NC_001491.2 + 35707 0.68 0.477145
Target:  5'- uCCCCGAgcugcuGAGCGAGUucuGCCGGGUg-- -3'
miRNA:   3'- uGGGGUU------CUCGCUCGc--CGGCCCGaaa -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.