miRNA display CGI


Results 1 - 20 of 20 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
21713 5' -56.3 NC_004812.1 + 29387 0.66 0.91163
Target:  5'- -cGGGGCCGGgCg-GAGUCUGgcggaGUCGg -3'
miRNA:   3'- guCUCCGGCUgGagCUCAGACa----CAGU- -5'
21713 5' -56.3 NC_004812.1 + 154895 0.66 0.91163
Target:  5'- -cGGGGCCGGgCg-GAGUCUGgcggaGUCGg -3'
miRNA:   3'- guCUCCGGCUgGagCUCAGACa----CAGU- -5'
21713 5' -56.3 NC_004812.1 + 28010 0.66 0.89928
Target:  5'- gCGGGGGCUGACC-CGAG-CUGccacaUGaUCAg -3'
miRNA:   3'- -GUCUCCGGCUGGaGCUCaGAC-----AC-AGU- -5'
21713 5' -56.3 NC_004812.1 + 145072 0.66 0.89928
Target:  5'- cCAGA-GCCGGCCUCGGGUg-GUacggacacaccGUCAa -3'
miRNA:   3'- -GUCUcCGGCUGGAGCUCAgaCA-----------CAGU- -5'
21713 5' -56.3 NC_004812.1 + 35213 0.66 0.87904
Target:  5'- gCAGAGGUCGACCg-GGG-CgGUGUUg -3'
miRNA:   3'- -GUCUCCGGCUGGagCUCaGaCACAGu -5'
21713 5' -56.3 NC_004812.1 + 154481 0.67 0.849027
Target:  5'- ---cGGCCGGgCUCGAGUCguccGUcGUCGg -3'
miRNA:   3'- gucuCCGGCUgGAGCUCAGa---CA-CAGU- -5'
21713 5' -56.3 NC_004812.1 + 123580 0.67 0.849027
Target:  5'- ---cGGCCGGgCUCGAGUCguccGUcGUCGg -3'
miRNA:   3'- gucuCCGGCUgGAGCUCAGa---CA-CAGU- -5'
21713 5' -56.3 NC_004812.1 + 101171 0.67 0.849027
Target:  5'- gCGGaAGGCggCGGCCUCGGGUCcG-GUCu -3'
miRNA:   3'- -GUC-UCCG--GCUGGAGCUCAGaCaCAGu -5'
21713 5' -56.3 NC_004812.1 + 139012 0.68 0.832825
Target:  5'- --cGGGCCcGCCUCGcccgcAGUCUGcUGUCGg -3'
miRNA:   3'- gucUCCGGcUGGAGC-----UCAGAC-ACAGU- -5'
21713 5' -56.3 NC_004812.1 + 151390 0.68 0.824449
Target:  5'- -cGAGGCCGacgccggcucgGCCUCGgAGUCgggGUCGg -3'
miRNA:   3'- guCUCCGGC-----------UGGAGC-UCAGacaCAGU- -5'
21713 5' -56.3 NC_004812.1 + 69949 0.68 0.824449
Target:  5'- uCGGAGGCCGAggggGGGUCUGUGg-- -3'
miRNA:   3'- -GUCUCCGGCUggagCUCAGACACagu -5'
21713 5' -56.3 NC_004812.1 + 25882 0.68 0.824449
Target:  5'- -cGAGGCCGacgccggcucgGCCUCGgAGUCgggGUCGg -3'
miRNA:   3'- guCUCCGGC-----------UGGAGC-UCAGacaCAGU- -5'
21713 5' -56.3 NC_004812.1 + 84214 0.68 0.807184
Target:  5'- cCGGcaccGCCGACCgcaaaCGGcGUCUGUGUCAc -3'
miRNA:   3'- -GUCuc--CGGCUGGa----GCU-CAGACACAGU- -5'
21713 5' -56.3 NC_004812.1 + 88659 0.68 0.798311
Target:  5'- -cGuGGCCGcCUUCGAGUUUGUcuacGUCAu -3'
miRNA:   3'- guCuCCGGCuGGAGCUCAGACA----CAGU- -5'
21713 5' -56.3 NC_004812.1 + 17605 0.68 0.789289
Target:  5'- uCGGAGgacuuccgcGCCGGCCUCGuGUcCUGgugGUCGu -3'
miRNA:   3'- -GUCUC---------CGGCUGGAGCuCA-GACa--CAGU- -5'
21713 5' -56.3 NC_004812.1 + 110158 0.69 0.761417
Target:  5'- gCGGAGGCCcuGGCCcgCGGGg--GUGUCGa -3'
miRNA:   3'- -GUCUCCGG--CUGGa-GCUCagaCACAGU- -5'
21713 5' -56.3 NC_004812.1 + 26135 0.74 0.496246
Target:  5'- ----cGCCGACCacccgggcucgacggUCGAGUCUGUGUCGu -3'
miRNA:   3'- gucucCGGCUGG---------------AGCUCAGACACAGU- -5'
21713 5' -56.3 NC_004812.1 + 134103 0.83 0.148276
Target:  5'- nAGAGGCCGACCUCGAGUCcGUaUCc -3'
miRNA:   3'- gUCUCCGGCUGGAGCUCAGaCAcAGu -5'
21713 5' -56.3 NC_004812.1 + 134056 0.91 0.047576
Target:  5'- -cGAGGCCGACCUCGAGUCUGUGn-- -3'
miRNA:   3'- guCUCCGGCUGGAGCUCAGACACagu -5'
21713 5' -56.3 NC_004812.1 + 134078 1.08 0.003219
Target:  5'- uCAGAGGCCGACCUCGAGUCUGUGUCAg -3'
miRNA:   3'- -GUCUCCGGCUGGAGCUCAGACACAGU- -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.