miRNA display CGI


Results 1 - 20 of 21 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
1648 3' -60.1 NC_001347.2 + 142411 0.66 0.862977
Target:  5'- uCGGCGcUCUUCGcGcCcagUGGCGuCGGCGCGg -3'
miRNA:   3'- -GCCGC-AGAGGC-CaG---ACCGC-GCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 221797 0.66 0.855761
Target:  5'- uGGCGaCUuuGGUUUcGGCGCaGACGg- -3'
miRNA:   3'- gCCGCaGAggCCAGA-CCGCG-CUGUgu -5'
1648 3' -60.1 NC_001347.2 + 53068 0.66 0.833062
Target:  5'- uGGCGUCUCCG---UGGU-CGACGCu -3'
miRNA:   3'- gCCGCAGAGGCcagACCGcGCUGUGu -5'
1648 3' -60.1 NC_001347.2 + 100861 0.66 0.833062
Target:  5'- aGaGCGUCacagCCGaGgc-GGCGCGGCGCAg -3'
miRNA:   3'- gC-CGCAGa---GGC-CagaCCGCGCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 151484 0.66 0.833062
Target:  5'- gGGCGcCUCgGGUCUgagcaugaagGGCGUGgaucugguGCGCAa -3'
miRNA:   3'- gCCGCaGAGgCCAGA----------CCGCGC--------UGUGU- -5'
1648 3' -60.1 NC_001347.2 + 151938 0.66 0.825165
Target:  5'- cCGGCGUgguUUcCCGGUC-GGaCGCGAUugAu -3'
miRNA:   3'- -GCCGCA---GA-GGCCAGaCC-GCGCUGugU- -5'
1648 3' -60.1 NC_001347.2 + 148603 0.67 0.808911
Target:  5'- gCGGCGUgaCCGG-C-GGUGCGGuCGCGg -3'
miRNA:   3'- -GCCGCAgaGGCCaGaCCGCGCU-GUGU- -5'
1648 3' -60.1 NC_001347.2 + 138701 0.67 0.800568
Target:  5'- gGuGCGUCggcuagCGGUCUGGUGCGAgAg- -3'
miRNA:   3'- gC-CGCAGag----GCCAGACCGCGCUgUgu -5'
1648 3' -60.1 NC_001347.2 + 192175 0.67 0.79209
Target:  5'- cCGcCGUCUCCGGaugagcGGcCGCGGCGCGg -3'
miRNA:   3'- -GCcGCAGAGGCCaga---CC-GCGCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 82494 0.67 0.784351
Target:  5'- uCGGCGUCcguagucacggCCGaGgccagcgcagcguagCUGGCGCGAUGCAc -3'
miRNA:   3'- -GCCGCAGa----------GGC-Ca--------------GACCGCGCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 65962 0.67 0.771238
Target:  5'- cCGGC--CUCgGGUUgccuggacgccugGGCGCGACGCGg -3'
miRNA:   3'- -GCCGcaGAGgCCAGa------------CCGCGCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 2100 0.68 0.765922
Target:  5'- aCGGCGcCgCCGG-CgggGGCGCGAUuuGCGu -3'
miRNA:   3'- -GCCGCaGaGGCCaGa--CCGCGCUG--UGU- -5'
1648 3' -60.1 NC_001347.2 + 37320 0.68 0.738808
Target:  5'- gCGGCuuauGUUUCUGGggugGGCGCGACgGCAa -3'
miRNA:   3'- -GCCG----CAGAGGCCaga-CCGCGCUG-UGU- -5'
1648 3' -60.1 NC_001347.2 + 2356 0.68 0.720308
Target:  5'- gGGCGUg-CUGGgcgcgCUGGCGCuggGACGCGa -3'
miRNA:   3'- gCCGCAgaGGCCa----GACCGCG---CUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 16263 0.69 0.692075
Target:  5'- gCGcGCGUCaUCUGGacgagCUGGCGCGuuACGg -3'
miRNA:   3'- -GC-CGCAG-AGGCCa----GACCGCGCugUGU- -5'
1648 3' -60.1 NC_001347.2 + 145640 0.71 0.586608
Target:  5'- gGGUGUUUCCcggagGGUCc-GCGCGACACGc -3'
miRNA:   3'- gCCGCAGAGG-----CCAGacCGCGCUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 140023 0.71 0.586608
Target:  5'- uGGUGuaUCUCCaGUCgucGGCGCGGCAUc -3'
miRNA:   3'- gCCGC--AGAGGcCAGa--CCGCGCUGUGu -5'
1648 3' -60.1 NC_001347.2 + 13154 0.72 0.530009
Target:  5'- gCGGCGUUaCaGcGUCUGGUGCGGCAUg -3'
miRNA:   3'- -GCCGCAGaGgC-CAGACCGCGCUGUGu -5'
1648 3' -60.1 NC_001347.2 + 195899 0.73 0.475528
Target:  5'- cCGGCGcUUUCCGccGUCUGGUGCacgaGGCGCAg -3'
miRNA:   3'- -GCCGC-AGAGGC--CAGACCGCG----CUGUGU- -5'
1648 3' -60.1 NC_001347.2 + 41363 0.75 0.383678
Target:  5'- aCGGCGUCUCU-GUCUGGCGUcaGCACc -3'
miRNA:   3'- -GCCGCAGAGGcCAGACCGCGc-UGUGu -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.