miRNA display CGI


Results 1 - 20 of 33 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
1518 3' -55.4 NC_001335.1 + 44127 1.11 0.000645
Target:  5'- cCUCACACCUCUGCGCGAACAGCCACCc -3'
miRNA:   3'- -GAGUGUGGAGACGCGCUUGUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 49866 0.76 0.207507
Target:  5'- gUCGaGCCUCUGCGagugcaGGuagACAGCCGCCg -3'
miRNA:   3'- gAGUgUGGAGACGCg-----CU---UGUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 5360 0.73 0.32128
Target:  5'- gCUCACcgagAUCgcCUGCGCGAGCGcGCCGCUc -3'
miRNA:   3'- -GAGUG----UGGa-GACGCGCUUGU-CGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 8083 0.71 0.398208
Target:  5'- aCUCcuuCACgUCgGCGCGGAacGCCACCa -3'
miRNA:   3'- -GAGu--GUGgAGaCGCGCUUguCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 20766 0.7 0.426347
Target:  5'- uUCACGCUgUCaGCGUucGCAGCCAUCg -3'
miRNA:   3'- gAGUGUGG-AGaCGCGcuUGUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 48465 0.7 0.435986
Target:  5'- gUCAUgagACCUCcagUGUGCGAACGGCCu-- -3'
miRNA:   3'- gAGUG---UGGAG---ACGCGCUUGUCGGugg -5'
1518 3' -55.4 NC_001335.1 + 48274 0.7 0.435986
Target:  5'- gCUCGCGCCguaccUUGuCGCGGcCGGCCgGCCg -3'
miRNA:   3'- -GAGUGUGGa----GAC-GCGCUuGUCGG-UGG- -5'
1518 3' -55.4 NC_001335.1 + 37702 0.7 0.444768
Target:  5'- -gUACACCgugaccgGCGCGAACAGCguucucacgugagCACCa -3'
miRNA:   3'- gaGUGUGGaga----CGCGCUUGUCG-------------GUGG- -5'
1518 3' -55.4 NC_001335.1 + 35520 0.7 0.455634
Target:  5'- gCUCAUcgagaACCccgagCUGCGCGAuggcuaccucuACgAGCCGCCg -3'
miRNA:   3'- -GAGUG-----UGGa----GACGCGCU-----------UG-UCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 50397 0.7 0.465636
Target:  5'- cCUCACACCgcgaaCcGuCGCGG--GGCCACCg -3'
miRNA:   3'- -GAGUGUGGa----GaC-GCGCUugUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 16932 0.69 0.481872
Target:  5'- gCUCACGCCggccuuccagacgCUG-GCGAGCAcGCCGgCa -3'
miRNA:   3'- -GAGUGUGGa------------GACgCGCUUGU-CGGUgG- -5'
1518 3' -55.4 NC_001335.1 + 12740 0.69 0.517239
Target:  5'- uUCuGCGCCUCgUGCGUaacccGGAgGGCUACCu -3'
miRNA:   3'- gAG-UGUGGAG-ACGCG-----CUUgUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 1202 0.68 0.546043
Target:  5'- gCUCcaGCGCCUCUGCgguuGCGugcuccgguuccggGACcggGGCCGCCu -3'
miRNA:   3'- -GAG--UGUGGAGACG----CGC--------------UUG---UCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 31782 0.68 0.549277
Target:  5'- cCUCGCggGCCUgcUUGCGCGGcaAGCC-CCg -3'
miRNA:   3'- -GAGUG--UGGA--GACGCGCUugUCGGuGG- -5'
1518 3' -55.4 NC_001335.1 + 47823 0.68 0.549277
Target:  5'- cCUCgaaACCUCgagggGUuCGAACGGCCACUc -3'
miRNA:   3'- -GAGug-UGGAGa----CGcGCUUGUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 45408 0.68 0.549277
Target:  5'- aCUCAucCugCUCgaacgGCGCGGGCucgucauGCCACg -3'
miRNA:   3'- -GAGU--GugGAGa----CGCGCUUGu------CGGUGg -5'
1518 3' -55.4 NC_001335.1 + 2220 0.68 0.560098
Target:  5'- gUgGCcguUCUCUGCGaCGAACgcccgaggGGCCACCu -3'
miRNA:   3'- gAgUGu--GGAGACGC-GCUUG--------UCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 29159 0.68 0.592877
Target:  5'- --gGCACCUgggCUGCGUcAGCGGUCAUCu -3'
miRNA:   3'- gagUGUGGA---GACGCGcUUGUCGGUGG- -5'
1518 3' -55.4 NC_001335.1 + 23823 0.67 0.614911
Target:  5'- uCUC-CACCUCUGCcccaGCcguCAGCCaggGCCa -3'
miRNA:   3'- -GAGuGUGGAGACG----CGcuuGUCGG---UGG- -5'
1518 3' -55.4 NC_001335.1 + 28775 0.67 0.637005
Target:  5'- uCUCucaGCCUCUGagGCGGGCAGagaCGCg -3'
miRNA:   3'- -GAGug-UGGAGACg-CGCUUGUCg--GUGg -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.