miRNA display CGI


Results 1 - 20 of 36 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
11594 3' -55.6 NC_003085.1 + 1674 0.68 0.588662
Target:  5'- cGCGGCGac--GUCACCCUCuaccacugcaCGCACGa -3'
miRNA:   3'- -UGCUGCcuuuCAGUGGGAG----------GCGUGCc -5'
11594 3' -55.6 NC_003085.1 + 2992 0.68 0.588662
Target:  5'- cGCGugGGAAc--CGCUCcCCGCugGGc -3'
miRNA:   3'- -UGCugCCUUucaGUGGGaGGCGugCC- -5'
11594 3' -55.6 NC_003085.1 + 5280 0.73 0.316318
Target:  5'- cGCGACGGGAcgcccuggagaccgaAGUCGccuCCCUCCGCgaGCGc -3'
miRNA:   3'- -UGCUGCCUU---------------UCAGU---GGGAGGCG--UGCc -5'
11594 3' -55.6 NC_003085.1 + 5396 0.68 0.57784
Target:  5'- gGCGAaccgcUGGAGGGUgGCCCUUCGagcgcucuugaGCGGa -3'
miRNA:   3'- -UGCU-----GCCUUUCAgUGGGAGGCg----------UGCC- -5'
11594 3' -55.6 NC_003085.1 + 7303 0.68 0.567063
Target:  5'- uCGACGGGAAGUCuCCgaCgGCcaucGCGGa -3'
miRNA:   3'- uGCUGCCUUUCAGuGGgaGgCG----UGCC- -5'
11594 3' -55.6 NC_003085.1 + 7432 0.66 0.704839
Target:  5'- cCGGCuGGAGAGaaggCGCCCUcguccgugccgacgCCGC-CGGg -3'
miRNA:   3'- uGCUG-CCUUUCa---GUGGGA--------------GGCGuGCC- -5'
11594 3' -55.6 NC_003085.1 + 9770 0.69 0.535072
Target:  5'- aACGGCGGAGAGaCGagCCUCCaGCGCc- -3'
miRNA:   3'- -UGCUGCCUUUCaGUg-GGAGG-CGUGcc -5'
11594 3' -55.6 NC_003085.1 + 10153 0.69 0.49347
Target:  5'- cGCGGCGGGGAG-UACCgCgaggaCCGgGCGGa -3'
miRNA:   3'- -UGCUGCCUUUCaGUGG-Ga----GGCgUGCC- -5'
11594 3' -55.6 NC_003085.1 + 12119 0.75 0.243693
Target:  5'- cACGACGGaAAAGUCACcggugccugcuCCUCCGUACc- -3'
miRNA:   3'- -UGCUGCC-UUUCAGUG-----------GGAGGCGUGcc -5'
11594 3' -55.6 NC_003085.1 + 12538 0.66 0.686582
Target:  5'- cGCGGCaGAGGGaugcCACCCgccgCCGCugGc -3'
miRNA:   3'- -UGCUGcCUUUCa---GUGGGa---GGCGugCc -5'
11594 3' -55.6 NC_003085.1 + 13019 0.71 0.396833
Target:  5'- cAUGA-GGc--GcCGCCCUCCGCACGGu -3'
miRNA:   3'- -UGCUgCCuuuCaGUGGGAGGCGUGCC- -5'
11594 3' -55.6 NC_003085.1 + 14711 0.7 0.463265
Target:  5'- -aGugGGAAcacccGUCA-CCUCCGCGCGa -3'
miRNA:   3'- ugCugCCUUu----CAGUgGGAGGCGUGCc -5'
11594 3' -55.6 NC_003085.1 + 14786 0.66 0.718667
Target:  5'- aACGGCGcGGGGUgcaaaaggccgaCAUCCUCCGCgaggccaucGCGGa -3'
miRNA:   3'- -UGCUGCcUUUCA------------GUGGGAGGCG---------UGCC- -5'
11594 3' -55.6 NC_003085.1 + 18277 0.66 0.67577
Target:  5'- gGCGACaGGGAAGaaGCCa-CCGgGCGGu -3'
miRNA:   3'- -UGCUG-CCUUUCagUGGgaGGCgUGCC- -5'
11594 3' -55.6 NC_003085.1 + 18725 0.66 0.697343
Target:  5'- -aGACGGGAcG-CGCCUUCCuGCGCa- -3'
miRNA:   3'- ugCUGCCUUuCaGUGGGAGG-CGUGcc -5'
11594 3' -55.6 NC_003085.1 + 19066 0.67 0.654035
Target:  5'- cGCGGCGGAGcAGgCGCCgggcCCGgACGGa -3'
miRNA:   3'- -UGCUGCCUU-UCaGUGGga--GGCgUGCC- -5'
11594 3' -55.6 NC_003085.1 + 21993 0.66 0.718666
Target:  5'- cCGACG--AGGUgGCCUcCCGCACGa -3'
miRNA:   3'- uGCUGCcuUUCAgUGGGaGGCGUGCc -5'
11594 3' -55.6 NC_003085.1 + 22496 0.69 0.543546
Target:  5'- gGCGACGGAcGG-CACCgacaucggaagCCGCACGa -3'
miRNA:   3'- -UGCUGCCUuUCaGUGGga---------GGCGUGCc -5'
11594 3' -55.6 NC_003085.1 + 22907 0.66 0.711237
Target:  5'- cCGGCGGAGgcugccgGGgcgaaGCCCUCCgaggccgcgucgacgGCGCGGc -3'
miRNA:   3'- uGCUGCCUU-------UCag---UGGGAGG---------------CGUGCC- -5'
11594 3' -55.6 NC_003085.1 + 23611 0.68 0.570291
Target:  5'- uCGACGGugacgauuuuGAAGUaggccagguucuccaCCUCCGCGCGGg -3'
miRNA:   3'- uGCUGCC----------UUUCAgug------------GGAGGCGUGCC- -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.