miRNA display CGI


Results 1 - 20 of 40 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
23281 5' -57.4 NC_005259.1 + 20524 0.66 0.707057
Target:  5'- cCGAGCaCGGGuGCGCUGcccgcAGCGUGguGGa -3'
miRNA:   3'- -GCUCG-GCCCuUGCGGC-----UUGCGUguCU- -5'
23281 5' -57.4 NC_005259.1 + 66212 0.66 0.707057
Target:  5'- -aGGCgCGGucGCGCCGA-CGCACAc- -3'
miRNA:   3'- gcUCG-GCCcuUGCGGCUuGCGUGUcu -5'
23281 5' -57.4 NC_005259.1 + 31073 0.66 0.707057
Target:  5'- uCGGGUCGGcGAGguucCCGAGCGCGuCGGGg -3'
miRNA:   3'- -GCUCGGCC-CUUgc--GGCUUGCGU-GUCU- -5'
23281 5' -57.4 NC_005259.1 + 12559 0.66 0.707057
Target:  5'- --uGCCGGGGugGCC---CGC-CAGAu -3'
miRNA:   3'- gcuCGGCCCUugCGGcuuGCGuGUCU- -5'
23281 5' -57.4 NC_005259.1 + 54007 0.66 0.69665
Target:  5'- --cGCCGGGGuccaccagcgACGCuCGGGCGCGguGc -3'
miRNA:   3'- gcuCGGCCCU----------UGCG-GCUUGCGUguCu -5'
23281 5' -57.4 NC_005259.1 + 46990 0.66 0.69665
Target:  5'- uCGGGCCGaGGGuGCGCC--ACGCGaGGAa -3'
miRNA:   3'- -GCUCGGC-CCU-UGCGGcuUGCGUgUCU- -5'
23281 5' -57.4 NC_005259.1 + 68873 0.66 0.665122
Target:  5'- cCGcGCCGGGcGCGCCGAugagguagaugAgGCGguGGu -3'
miRNA:   3'- -GCuCGGCCCuUGCGGCU-----------UgCGUguCU- -5'
23281 5' -57.4 NC_005259.1 + 44458 0.66 0.665122
Target:  5'- uGAGaCCGGGGAUGCCGc-CGCcCuGGc -3'
miRNA:   3'- gCUC-GGCCCUUGCGGCuuGCGuGuCU- -5'
23281 5' -57.4 NC_005259.1 + 17769 0.66 0.654543
Target:  5'- gCGcGCCGG----GCCGAGCGCACcGAg -3'
miRNA:   3'- -GCuCGGCCcuugCGGCUUGCGUGuCU- -5'
23281 5' -57.4 NC_005259.1 + 33987 0.66 0.654543
Target:  5'- uGAGCCGGGuauGCGgUGAGCuGCAacCGGc -3'
miRNA:   3'- gCUCGGCCCu--UGCgGCUUG-CGU--GUCu -5'
23281 5' -57.4 NC_005259.1 + 47068 0.66 0.654543
Target:  5'- uGAGCgaGGcGAGCGCCGAgacgAUGgGCAGc -3'
miRNA:   3'- gCUCGg-CC-CUUGCGGCU----UGCgUGUCu -5'
23281 5' -57.4 NC_005259.1 + 60533 0.67 0.643943
Target:  5'- cCGGGCCGGGAcGCaGCCGcuCGUcgGCAu- -3'
miRNA:   3'- -GCUCGGCCCU-UG-CGGCuuGCG--UGUcu -5'
23281 5' -57.4 NC_005259.1 + 45818 0.67 0.643943
Target:  5'- gCGuAGCCGGGGaugaccAUGCCGucCGCACcaccGGGg -3'
miRNA:   3'- -GC-UCGGCCCU------UGCGGCuuGCGUG----UCU- -5'
23281 5' -57.4 NC_005259.1 + 27475 0.67 0.639701
Target:  5'- gGGGCCGGGGucgguguggccacCGCCccACGCGCcGAg -3'
miRNA:   3'- gCUCGGCCCUu------------GCGGcuUGCGUGuCU- -5'
23281 5' -57.4 NC_005259.1 + 20665 0.67 0.612123
Target:  5'- gGGGCCGaGGACGCCauGAugugguCGCACGGc -3'
miRNA:   3'- gCUCGGCcCUUGCGG--CUu-----GCGUGUCu -5'
23281 5' -57.4 NC_005259.1 + 27893 0.67 0.601537
Target:  5'- aCGAuccacCUGGGGuCGCCGAGacCGCGCGGGu -3'
miRNA:   3'- -GCUc----GGCCCUuGCGGCUU--GCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 32566 0.67 0.587812
Target:  5'- gCGAGCgCGGGGauaGCGuuGGgcagcgguuuacgcGCGUGCAGGa -3'
miRNA:   3'- -GCUCG-GCCCU---UGCggCU--------------UGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 52168 0.68 0.580446
Target:  5'- cCGAGgCGcucaugcagcaGGAccGCGCCGAcaACGCACGGc -3'
miRNA:   3'- -GCUCgGC-----------CCU--UGCGGCU--UGCGUGUCu -5'
23281 5' -57.4 NC_005259.1 + 58143 0.68 0.559513
Target:  5'- uGAGCCGGaucucaucGAAcuCGUCG-GCGCACGGGa -3'
miRNA:   3'- gCUCGGCC--------CUU--GCGGCuUGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 65731 0.68 0.553273
Target:  5'- gCGAGuuGGGGucgacccauuggauCGCCGAGuagugguaccCGUACAGAu -3'
miRNA:   3'- -GCUCggCCCUu-------------GCGGCUU----------GCGUGUCU- -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.