miRNA display CGI


Results 1 - 16 of 16 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
9603 5' -53.5 NC_002577.1 + 100996 0.66 0.970523
Target:  5'- gCGCggcCGCUGGCAUAuggcgguacagguCCUCGggcagUCGACg -3'
miRNA:   3'- -GCGa--GCGACUGUAUu------------GGAGCg----AGCUG- -5'
9603 5' -53.5 NC_002577.1 + 136613 0.66 0.968729
Target:  5'- uCGCUCGCgUGGCG-AGCaCUCcCUCGcACg -3'
miRNA:   3'- -GCGAGCG-ACUGUaUUG-GAGcGAGC-UG- -5'
9603 5' -53.5 NC_002577.1 + 160724 0.66 0.968729
Target:  5'- uCGCUCGCgUGGCG-AGCaCUCcCUCGcACg -3'
miRNA:   3'- -GCGAGCG-ACUGUaUUG-GAGcGAGC-UG- -5'
9603 5' -53.5 NC_002577.1 + 144387 0.67 0.958593
Target:  5'- uGCUCuCaGAag-AGCCUUGCUCGAUa -3'
miRNA:   3'- gCGAGcGaCUguaUUGGAGCGAGCUG- -5'
9603 5' -53.5 NC_002577.1 + 136028 0.68 0.932064
Target:  5'- aGCUaCGacgGuCAUAACCUCGCggGACg -3'
miRNA:   3'- gCGA-GCga-CuGUAUUGGAGCGagCUG- -5'
9603 5' -53.5 NC_002577.1 + 161310 0.68 0.932064
Target:  5'- aGCUaCGacgGuCAUAACCUCGCggGACg -3'
miRNA:   3'- gCGA-GCga-CuGUAUUGGAGCGagCUG- -5'
9603 5' -53.5 NC_002577.1 + 86610 0.68 0.932064
Target:  5'- uGCUCGaUUGGCAgucccGGCCcCGCUCuGGCg -3'
miRNA:   3'- gCGAGC-GACUGUa----UUGGaGCGAG-CUG- -5'
9603 5' -53.5 NC_002577.1 + 11554 0.68 0.909522
Target:  5'- uCGCUC-CcGACGgGGCuCUCGUUCGGCg -3'
miRNA:   3'- -GCGAGcGaCUGUaUUG-GAGCGAGCUG- -5'
9603 5' -53.5 NC_002577.1 + 122060 0.68 0.909522
Target:  5'- uCGCUC-CcGACGgGGCuCUCGUUCGGCg -3'
miRNA:   3'- -GCGAGcGaCUGUaUUG-GAGCGAGCUG- -5'
9603 5' -53.5 NC_002577.1 + 154743 0.69 0.903279
Target:  5'- aGUUCGUUGGCGUGGCCacgaGCUCu-- -3'
miRNA:   3'- gCGAGCGACUGUAUUGGag--CGAGcug -5'
9603 5' -53.5 NC_002577.1 + 34856 0.69 0.896796
Target:  5'- aCGCUauugagCGCUaGAguUGACCUUGCcCGACa -3'
miRNA:   3'- -GCGA------GCGA-CUguAUUGGAGCGaGCUG- -5'
9603 5' -53.5 NC_002577.1 + 39476 0.69 0.896796
Target:  5'- gCGCUCGCcugGugAUAGCCUCgGCUg--- -3'
miRNA:   3'- -GCGAGCGa--CugUAUUGGAG-CGAgcug -5'
9603 5' -53.5 NC_002577.1 + 125654 0.7 0.853088
Target:  5'- gCGCgggCGCgGGCAgggaguUAACCUCGCgaucCGACc -3'
miRNA:   3'- -GCGa--GCGaCUGU------AUUGGAGCGa---GCUG- -5'
9603 5' -53.5 NC_002577.1 + 52600 0.73 0.725536
Target:  5'- --gUCGCUGACAUcAAgC-CGCUCGACa -3'
miRNA:   3'- gcgAGCGACUGUA-UUgGaGCGAGCUG- -5'
9603 5' -53.5 NC_002577.1 + 142867 0.73 0.684996
Target:  5'- cCGCccuUCGUUGACGUgucggcGACCUCuGCUCGAg -3'
miRNA:   3'- -GCG---AGCGACUGUA------UUGGAG-CGAGCUg -5'
9603 5' -53.5 NC_002577.1 + 19287 1.09 0.005163
Target:  5'- cCGCUCGCUGACAUAACCUCGCUCGACc -3'
miRNA:   3'- -GCGAGCGACUGUAUUGGAGCGAGCUG- -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.