miRNA display CGI


Results 1 - 19 of 19 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
24654 3' -54.2 NC_005264.1 + 127311 0.66 0.958093
Target:  5'- ---cGC-CCUauagGUUUCGcCGCGCCCa- -3'
miRNA:   3'- guuuCGaGGAa---CAAAGC-GCGCGGGgu -5'
24654 3' -54.2 NC_005264.1 + 80582 0.66 0.958093
Target:  5'- ---cGCUCCggUGccgccugUCGCGaGCCCCGa -3'
miRNA:   3'- guuuCGAGGa-ACaa-----AGCGCgCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 37659 0.66 0.957716
Target:  5'- gAAGGCUUCg-GUUgccggcaUCG-GCGCCCCAc -3'
miRNA:   3'- gUUUCGAGGaaCAA-------AGCgCGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 73010 0.66 0.954214
Target:  5'- gAAAGCUCCUg-------GCGCCCCAc -3'
miRNA:   3'- gUUUCGAGGAacaaagcgCGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 60904 0.66 0.954214
Target:  5'- uGGGGCcgacgCCgccaGUUUCGCGCGCCa-- -3'
miRNA:   3'- gUUUCGa----GGaa--CAAAGCGCGCGGggu -5'
24654 3' -54.2 NC_005264.1 + 6882 0.66 0.954214
Target:  5'- cCAGAGCgUCCgcgagcCGCGCaGUCCCAg -3'
miRNA:   3'- -GUUUCG-AGGaacaaaGCGCG-CGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 56177 0.66 0.949675
Target:  5'- gCGGAGUUCCUcugccGUagucUUCGaagacgagucgaaCGCGCCCCAg -3'
miRNA:   3'- -GUUUCGAGGAa----CA----AAGC-------------GCGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 3301 0.66 0.945745
Target:  5'- -uGAGCUCgCgcgGgaUCGCGCGCCgUg -3'
miRNA:   3'- guUUCGAG-Gaa-CaaAGCGCGCGGgGu -5'
24654 3' -54.2 NC_005264.1 + 155630 0.66 0.945745
Target:  5'- gAAGGCgaucgCCgUGUcUCGCGUuGUCCCAg -3'
miRNA:   3'- gUUUCGa----GGaACAaAGCGCG-CGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 36603 0.66 0.945745
Target:  5'- gAAGGCgaucgCCgUGUcUCGCGUuGUCCCAg -3'
miRNA:   3'- gUUUCGa----GGaACAaAGCGCG-CGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 28988 0.66 0.93581
Target:  5'- -cGAGCggCCUggagguaUGUUuuuccccaUCGCGCGUCCCu -3'
miRNA:   3'- guUUCGa-GGA-------ACAA--------AGCGCGCGGGGu -5'
24654 3' -54.2 NC_005264.1 + 108256 0.67 0.926431
Target:  5'- -cAAGCUCCaucuccgaccCGuCGCGCCCCAc -3'
miRNA:   3'- guUUCGAGGaacaaa----GC-GCGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 48528 0.67 0.925886
Target:  5'- gUAAAGuUUCCgcgucGUccCGCGCGCCCCc -3'
miRNA:   3'- -GUUUC-GAGGaa---CAaaGCGCGCGGGGu -5'
24654 3' -54.2 NC_005264.1 + 99782 0.68 0.888724
Target:  5'- -cGGGaCUUCUUGUUUgGgaaCGCGCCCCu -3'
miRNA:   3'- guUUC-GAGGAACAAAgC---GCGCGGGGu -5'
24654 3' -54.2 NC_005264.1 + 42712 0.68 0.884533
Target:  5'- ---cGCUCCguccuccugcUCGCuGCGCCCCAc -3'
miRNA:   3'- guuuCGAGGaacaa-----AGCG-CGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 69244 0.68 0.874431
Target:  5'- --uAGUUUCUgGUacUCGCGCGCCUCAu -3'
miRNA:   3'- guuUCGAGGAaCAa-AGCGCGCGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 101738 0.69 0.851326
Target:  5'- aAGAGCgUCUUGgcggCGCGCuCCCCAa -3'
miRNA:   3'- gUUUCGaGGAACaaa-GCGCGcGGGGU- -5'
24654 3' -54.2 NC_005264.1 + 105410 0.69 0.834884
Target:  5'- gCGGAGUUUUccGUUUCGCGCGCCa-- -3'
miRNA:   3'- -GUUUCGAGGaaCAAAGCGCGCGGggu -5'
24654 3' -54.2 NC_005264.1 + 93559 1.08 0.004581
Target:  5'- gCAAAGCUCCUUGUUUCGCGCGCCCCAu -3'
miRNA:   3'- -GUUUCGAGGAACAAAGCGCGCGGGGU- -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.