miRNA display CGI


Results 1 - 20 of 126 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
23574 3' -59.9 NC_005261.1 + 115754 1 0.005694
Target:  5'- cACACGUCGUCGGCC-CCGUCUCGGCGg -3'
miRNA:   3'- -UGUGCAGCAGCCGGaGGCAGAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 108456 0.79 0.148143
Target:  5'- aGCGCGUCGUCGGCgaggauCUCCGcgUCGGCGc -3'
miRNA:   3'- -UGUGCAGCAGCCG------GAGGCagAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 107156 0.76 0.257425
Target:  5'- cCAUGgaggCGgccaGcGCCUCCGUCUCGGCGg -3'
miRNA:   3'- uGUGCa---GCag--C-CGGAGGCAGAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 10390 0.75 0.282108
Target:  5'- cGCGCGcUCGUCGGCUUCUuucugCUCGGCc -3'
miRNA:   3'- -UGUGC-AGCAGCCGGAGGca---GAGCCGc -5'
23574 3' -59.9 NC_005261.1 + 114907 0.75 0.282108
Target:  5'- cGCGCGcUCGUCGGCUUCUuucugCUCGGCc -3'
miRNA:   3'- -UGUGC-AGCAGCCGGAGGca---GAGCCGc -5'
23574 3' -59.9 NC_005261.1 + 69632 0.74 0.299137
Target:  5'- cCACGcCGUCGGCCccgcucccgcggcCCGcCUCGGCGg -3'
miRNA:   3'- uGUGCaGCAGCCGGa------------GGCaGAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 70021 0.74 0.301826
Target:  5'- cGC-CGUUGUCGGCCgcgCCGg--CGGCGg -3'
miRNA:   3'- -UGuGCAGCAGCCGGa--GGCagaGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 101428 0.74 0.322589
Target:  5'- gGCACGUagCGcCGGCCggcgCaaaGUCUCGGCGc -3'
miRNA:   3'- -UGUGCA--GCaGCCGGa---Gg--CAGAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 92222 0.74 0.329743
Target:  5'- -gGCGUCGUCGGCC-CCGcCgagCGcGCGg -3'
miRNA:   3'- ugUGCAGCAGCCGGaGGCaGa--GC-CGC- -5'
23574 3' -59.9 NC_005261.1 + 81432 0.73 0.3444
Target:  5'- -gGCGUCGUCGGCCgCCccg-CGGCGg -3'
miRNA:   3'- ugUGCAGCAGCCGGaGGcagaGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 53148 0.73 0.35952
Target:  5'- cGCGCGcCGUCGcGCCgCCGUCgUCGGgGu -3'
miRNA:   3'- -UGUGCaGCAGC-CGGaGGCAG-AGCCgC- -5'
23574 3' -59.9 NC_005261.1 + 93720 0.73 0.36492
Target:  5'- uCGuCGUCGUCGGCggcggcagcgcgcgCUUCGUaCUCGGCGg -3'
miRNA:   3'- uGU-GCAGCAGCCG--------------GAGGCA-GAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 33848 0.73 0.367252
Target:  5'- gGCGCGccUC-UCGGCCUCCGgC-CGGCGg -3'
miRNA:   3'- -UGUGC--AGcAGCCGGAGGCaGaGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 6133 0.73 0.383055
Target:  5'- aGCGCGUCG-CGGCCgcccUCCG-CggcagCGGCGa -3'
miRNA:   3'- -UGUGCAGCaGCCGG----AGGCaGa----GCCGC- -5'
23574 3' -59.9 NC_005261.1 + 85540 0.72 0.415987
Target:  5'- cGCGCG-CGggCGG-CUCCGUCUgCGGCGc -3'
miRNA:   3'- -UGUGCaGCa-GCCgGAGGCAGA-GCCGC- -5'
23574 3' -59.9 NC_005261.1 + 106101 0.72 0.424487
Target:  5'- uCGCGaCGUCGGCCggCGUCgcCGGCGc -3'
miRNA:   3'- uGUGCaGCAGCCGGagGCAGa-GCCGC- -5'
23574 3' -59.9 NC_005261.1 + 27907 0.71 0.441793
Target:  5'- aGCGCGUCcgcggCGGCgCgguugCCGUaCUCGGCGg -3'
miRNA:   3'- -UGUGCAGca---GCCG-Ga----GGCA-GAGCCGC- -5'
23574 3' -59.9 NC_005261.1 + 58977 0.71 0.441793
Target:  5'- cCGCGUCGaaGGCCUCCacgggCGGCGg -3'
miRNA:   3'- uGUGCAGCagCCGGAGGcaga-GCCGC- -5'
23574 3' -59.9 NC_005261.1 + 49673 0.71 0.450595
Target:  5'- gACGCGUCGcCGGCgCUCgGguaCUCGGUc -3'
miRNA:   3'- -UGUGCAGCaGCCG-GAGgCa--GAGCCGc -5'
23574 3' -59.9 NC_005261.1 + 47715 0.71 0.450595
Target:  5'- -gGCGUCGggGGCCUCC---UCGGCGg -3'
miRNA:   3'- ugUGCAGCagCCGGAGGcagAGCCGC- -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.