miRNA display CGI


Results 1 - 20 of 38 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
11616 5' -60.9 NC_003085.1 + 2814 0.66 0.413018
Target:  5'- -cGCCUCggcaUcacuggcaacacgucUGCCCG-GCaGCCGGGCGa -3'
miRNA:   3'- gaCGGAG----A---------------ACGGGCuCG-CGGCCUGCc -5'
11616 5' -60.9 NC_003085.1 + 3920 0.7 0.220074
Target:  5'- -cGCCUCgaacugGaagCCGAGCGCCGcGGCGa -3'
miRNA:   3'- gaCGGAGaa----Cg--GGCUCGCGGC-CUGCc -5'
11616 5' -60.9 NC_003085.1 + 5458 0.7 0.225733
Target:  5'- -cGCCgag-GCCCGAGUGCgGGAguUGGa -3'
miRNA:   3'- gaCGGagaaCGGGCUCGCGgCCU--GCC- -5'
11616 5' -60.9 NC_003085.1 + 5651 0.7 0.237422
Target:  5'- cCUGUgaCUUGCgCGAGCGCC--GCGGa -3'
miRNA:   3'- -GACGgaGAACGgGCUCGCGGccUGCC- -5'
11616 5' -60.9 NC_003085.1 + 5881 0.67 0.34164
Target:  5'- -cGaCCUC-UGCCguGGCGCCGGGuCGGu -3'
miRNA:   3'- gaC-GGAGaACGGgcUCGCGGCCU-GCC- -5'
11616 5' -60.9 NC_003085.1 + 6620 0.72 0.179042
Target:  5'- -gGuCCUCaaGUCCG-GCGCCGGACGu -3'
miRNA:   3'- gaC-GGAGaaCGGGCuCGCGGCCUGCc -5'
11616 5' -60.9 NC_003085.1 + 6751 0.7 0.220074
Target:  5'- aCUGCCcg--GCCUGccGCGCCGuGGCGGa -3'
miRNA:   3'- -GACGGagaaCGGGCu-CGCGGC-CUGCC- -5'
11616 5' -60.9 NC_003085.1 + 6912 0.68 0.310923
Target:  5'- -aGCC-CUcGCCCGcGCGCUGGccgaggcgaaGCGGg -3'
miRNA:   3'- gaCGGaGAaCGGGCuCGCGGCC----------UGCC- -5'
11616 5' -60.9 NC_003085.1 + 7584 0.66 0.42486
Target:  5'- gCUGCgUCaggGCuacacgucggcgcaCCGcgagguggaccAGCGCCGGGCGGg -3'
miRNA:   3'- -GACGgAGaa-CG--------------GGC-----------UCGCGGCCUGCC- -5'
11616 5' -60.9 NC_003085.1 + 8486 0.74 0.120082
Target:  5'- -aGCC-CUUGCCgcuugCGAGCGCUGG-CGGg -3'
miRNA:   3'- gaCGGaGAACGG-----GCUCGCGGCCuGCC- -5'
11616 5' -60.9 NC_003085.1 + 8587 0.66 0.409415
Target:  5'- aUGCCgccgucGUCCGAGCGCgUGGugACGGa -3'
miRNA:   3'- gACGGagaa--CGGGCUCGCG-GCC--UGCC- -5'
11616 5' -60.9 NC_003085.1 + 10863 0.66 0.383031
Target:  5'- -gGCCUCUU-CCU--GCGCUGGACGc -3'
miRNA:   3'- gaCGGAGAAcGGGcuCGCGGCCUGCc -5'
11616 5' -60.9 NC_003085.1 + 15157 0.66 0.383031
Target:  5'- -cGCCUCggugcccUGCCCGcGaCGCUcGGCGGa -3'
miRNA:   3'- gaCGGAGa------ACGGGCuC-GCGGcCUGCC- -5'
11616 5' -60.9 NC_003085.1 + 17998 0.67 0.349654
Target:  5'- aCUGCCUCcUGUCCGAcgGCGCgaGGcCGu -3'
miRNA:   3'- -GACGGAGaACGGGCU--CGCGg-CCuGCc -5'
11616 5' -60.9 NC_003085.1 + 18086 0.67 0.355343
Target:  5'- -gGCCUCUUugcgGCCgGGGUcgagcuucuugucgGCgCGGGCGGg -3'
miRNA:   3'- gaCGGAGAA----CGGgCUCG--------------CG-GCCUGCC- -5'
11616 5' -60.9 NC_003085.1 + 24050 0.68 0.289294
Target:  5'- -aGCCg-UUGCCguUGAGgGCCGGACGc -3'
miRNA:   3'- gaCGGagAACGG--GCUCgCGGCCUGCc -5'
11616 5' -60.9 NC_003085.1 + 24367 0.66 0.418458
Target:  5'- -gGCCUUUggcGgCCGGGCcaucaaugGCCuGGACGGg -3'
miRNA:   3'- gaCGGAGAa--CgGGCUCG--------CGG-CCUGCC- -5'
11616 5' -60.9 NC_003085.1 + 24540 0.67 0.371954
Target:  5'- cCUGUCUCcgucUGCgCGAGCGCUGuuacucggcgaugaGGCGGc -3'
miRNA:   3'- -GACGGAGa---ACGgGCUCGCGGC--------------CUGCC- -5'
11616 5' -60.9 NC_003085.1 + 24637 0.67 0.357801
Target:  5'- -cGCCUCggcGuCCUGGuugaaagccgcGCGCCGcGACGGg -3'
miRNA:   3'- gaCGGAGaa-C-GGGCU-----------CGCGGC-CUGCC- -5'
11616 5' -60.9 NC_003085.1 + 25712 0.72 0.174418
Target:  5'- gCUGCCUCUcaccgacgUGUCCuucGGCGCCacGGugGGg -3'
miRNA:   3'- -GACGGAGA--------ACGGGc--UCGCGG--CCugCC- -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.