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
26582 5' -61.6 NC_005357.1 + 18056 0.66 0.347549
Target:  5'- gGGCcuuaccgGCGCggGGUgCGUGCuGGGcCGCCGa -3'
miRNA:   3'- -UCGa------CGCGa-CCA-GCGCG-CUCaGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 11420 0.66 0.323697
Target:  5'- cAGCgGCGagccGG-CGUGCaGGUCGCCGa -3'
miRNA:   3'- -UCGaCGCga--CCaGCGCGcUCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 8220 0.66 0.323697
Target:  5'- uAGUcGCGCUGGUCG-GCG-GcCGUCa -3'
miRNA:   3'- -UCGaCGCGACCAGCgCGCuCaGCGGc -5'
26582 5' -61.6 NC_005357.1 + 12371 0.66 0.316022
Target:  5'- -uUUGCGCgucGGUCG-GCGAGUCgauGCCu -3'
miRNA:   3'- ucGACGCGa--CCAGCgCGCUCAG---CGGc -5'
26582 5' -61.6 NC_005357.1 + 8127 0.66 0.308485
Target:  5'- cGGCcgGCGUUGGUugugggCGUGCGGGU-GUCGg -3'
miRNA:   3'- -UCGa-CGCGACCA------GCGCGCUCAgCGGC- -5'
26582 5' -61.6 NC_005357.1 + 11175 0.66 0.307738
Target:  5'- uGCgUGCGCUGGUCggccguggugaugGUGCG-GUCaauGCCGc -3'
miRNA:   3'- uCG-ACGCGACCAG-------------CGCGCuCAG---CGGC- -5'
26582 5' -61.6 NC_005357.1 + 32346 0.67 0.301086
Target:  5'- cGCcGCcCaGGUCGCuGCG-GUCGCCGc -3'
miRNA:   3'- uCGaCGcGaCCAGCG-CGCuCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 21191 0.67 0.285996
Target:  5'- cGGcCUGCuGCUGGUCuGCGCGuugcuugcggauaAG-CGCCa -3'
miRNA:   3'- -UC-GACG-CGACCAG-CGCGC-------------UCaGCGGc -5'
26582 5' -61.6 NC_005357.1 + 38933 0.67 0.266146
Target:  5'- cGCUGCGCucUGGUacaGCGGGcCGUCGu -3'
miRNA:   3'- uCGACGCG--ACCAgcgCGCUCaGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 31844 0.68 0.259565
Target:  5'- aGGCUGCGCgccugGGUacuaCGCcCGAGgCGCUGu -3'
miRNA:   3'- -UCGACGCGa----CCA----GCGcGCUCaGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 23417 0.68 0.253117
Target:  5'- gAGC-GCGCcGGUCaGUGCGA--CGCCGg -3'
miRNA:   3'- -UCGaCGCGaCCAG-CGCGCUcaGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 14641 0.68 0.246801
Target:  5'- cGGCUGCGC-GG-CGCGCGcuUCGUg- -3'
miRNA:   3'- -UCGACGCGaCCaGCGCGCucAGCGgc -5'
26582 5' -61.6 NC_005357.1 + 19742 0.68 0.234562
Target:  5'- uGCuUGgGCUGGUUGC-CGuuGUUGCCGg -3'
miRNA:   3'- uCG-ACgCGACCAGCGcGCu-CAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 38393 0.69 0.211613
Target:  5'- cGGCUGCGCUcGaccCGCGCGgcaugacgcuGGUgGCCGg -3'
miRNA:   3'- -UCGACGCGAcCa--GCGCGC----------UCAgCGGC- -5'
26582 5' -61.6 NC_005357.1 + 6621 0.69 0.211613
Target:  5'- cAGCggGCGCgUGGcgcugCGCGCGgacacguacaGGUUGCCGg -3'
miRNA:   3'- -UCGa-CGCG-ACCa----GCGCGC----------UCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 14940 0.69 0.204582
Target:  5'- cGaCUGCGCgcccaacucggcgaUGcUCGCGUGaAGUCGCCGg -3'
miRNA:   3'- uC-GACGCG--------------ACcAGCGCGC-UCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 4811 0.69 0.195693
Target:  5'- cGCUGCgggauuGCUGGcCG-GCGAcagGUCGCCGu -3'
miRNA:   3'- uCGACG------CGACCaGCgCGCU---CAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 4106 0.7 0.18567
Target:  5'- gGGCgGCGCUGaauUCGuCGCG-GUCGUCGg -3'
miRNA:   3'- -UCGaCGCGACc--AGC-GCGCuCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 41620 0.7 0.18083
Target:  5'- cGGCaaGgGCUGGgCGCgGCGcGUCGCCGg -3'
miRNA:   3'- -UCGa-CgCGACCaGCG-CGCuCAGCGGC- -5'
26582 5' -61.6 NC_005357.1 + 8616 0.71 0.149582
Target:  5'- uGGUUGCGCUucucggccgcugcGGUgGCGa-GGUCGCCGg -3'
miRNA:   3'- -UCGACGCGA-------------CCAgCGCgcUCAGCGGC- -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.