miRNA display CGI


Results 1 - 20 of 23 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
1429 5' -60.5 NC_001335.1 + 11581 0.66 0.495861
Target:  5'- uUCUGGCCGGuCGUGCCCa--UCGGGa -3'
miRNA:   3'- gGGGCUGGCUuGCGCGGGaggAGCUC- -5'
1429 5' -60.5 NC_001335.1 + 12665 0.66 0.495861
Target:  5'- uCCCCGACCuGGACGUgaaaGCCgCUgCgUCGGc -3'
miRNA:   3'- -GGGGCUGG-CUUGCG----CGG-GA-GgAGCUc -5'
1429 5' -60.5 NC_001335.1 + 36017 0.66 0.495861
Target:  5'- cUCCCaACCGAucaGCGCCUUCCgggUGGc -3'
miRNA:   3'- -GGGGcUGGCUug-CGCGGGAGGa--GCUc -5'
1429 5' -60.5 NC_001335.1 + 5347 0.66 0.476365
Target:  5'- gCCUG-CgCGAGCGCGCCgCUCagcguggaUCGGGu -3'
miRNA:   3'- gGGGCuG-GCUUGCGCGG-GAGg-------AGCUC- -5'
1429 5' -60.5 NC_001335.1 + 23676 0.66 0.465806
Target:  5'- uCCCCGACgGGgccaaguucaucgACGUcaUCCUCCUCGGa -3'
miRNA:   3'- -GGGGCUGgCU-------------UGCGc-GGGAGGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 35509 0.66 0.447859
Target:  5'- aCCCCGagcuGCgCGAugGCuaCCUCUaCGAGc -3'
miRNA:   3'- -GGGGC----UG-GCUugCGcgGGAGGaGCUC- -5'
1429 5' -60.5 NC_001335.1 + 20284 0.67 0.417627
Target:  5'- aCCCGgucagccacgaaccGCCGAACGCggucugaguGCCCcaaccugaguugUCCUCGAu -3'
miRNA:   3'- gGGGC--------------UGGCUUGCG---------CGGG------------AGGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 46415 0.67 0.402546
Target:  5'- cCCgCCGGCCGAuuccACGgccuUGUUCUCCUCGGc -3'
miRNA:   3'- -GG-GGCUGGCU----UGC----GCGGGAGGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 48881 0.68 0.385253
Target:  5'- aCCgCGuCCGGucgcCGCGUCCUgcucgaccaCCUCGAGg -3'
miRNA:   3'- -GGgGCuGGCUu---GCGCGGGA---------GGAGCUC- -5'
1429 5' -60.5 NC_001335.1 + 48770 0.68 0.376792
Target:  5'- aCCCGuAgCGGGCgGCGCaagCCUCGAGg -3'
miRNA:   3'- gGGGC-UgGCUUG-CGCGggaGGAGCUC- -5'
1429 5' -60.5 NC_001335.1 + 45689 0.68 0.368458
Target:  5'- uUgCGACCGAAgcCGCGUCCaUCCcuUCGGGa -3'
miRNA:   3'- gGgGCUGGCUU--GCGCGGG-AGG--AGCUC- -5'
1429 5' -60.5 NC_001335.1 + 15600 0.68 0.363518
Target:  5'- gCCCCGguacugcugcccACCacgacguucugcguaGAACGCGCCgUCUUUGGGa -3'
miRNA:   3'- -GGGGC------------UGG---------------CUUGCGCGGgAGGAGCUC- -5'
1429 5' -60.5 NC_001335.1 + 2046 0.68 0.36025
Target:  5'- uCCUCGACCaGGACGcCGCCgUggaucugcgCCUCGAu -3'
miRNA:   3'- -GGGGCUGG-CUUGC-GCGGgA---------GGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 40372 0.69 0.328714
Target:  5'- uCCCCaGGCgGGGCGCGCaugCCUgGGGg -3'
miRNA:   3'- -GGGG-CUGgCUUGCGCGggaGGAgCUC- -5'
1429 5' -60.5 NC_001335.1 + 8434 0.7 0.292228
Target:  5'- aCCCGGCCGcuACGgGCCUUCUUgcucaUGAGg -3'
miRNA:   3'- gGGGCUGGCu-UGCgCGGGAGGA-----GCUC- -5'
1429 5' -60.5 NC_001335.1 + 12091 0.7 0.285321
Target:  5'- aUCCGACCGAggcggaACGgGCUguuCUCCUCGGu -3'
miRNA:   3'- gGGGCUGGCU------UGCgCGG---GAGGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 11350 0.7 0.285321
Target:  5'- aCCCUGACCGcACcaCGCCgUUCCUCGGc -3'
miRNA:   3'- -GGGGCUGGCuUGc-GCGG-GAGGAGCUc -5'
1429 5' -60.5 NC_001335.1 + 17971 0.7 0.265377
Target:  5'- uUCUCGACCuuGAGucgcuUGCGCuCCUCUUCGAGa -3'
miRNA:   3'- -GGGGCUGG--CUU-----GCGCG-GGAGGAGCUC- -5'
1429 5' -60.5 NC_001335.1 + 40293 0.71 0.252719
Target:  5'- cCCCCaGGCau-GCGCGCCCcgCCUgGGGa -3'
miRNA:   3'- -GGGG-CUGgcuUGCGCGGGa-GGAgCUC- -5'
1429 5' -60.5 NC_001335.1 + 39240 0.71 0.234667
Target:  5'- cCCUCGGCac-GCGCGUCCUCCUCc-- -3'
miRNA:   3'- -GGGGCUGgcuUGCGCGGGAGGAGcuc -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.