miRNA display CGI


Results 1 - 18 of 18 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
29358 3' -55.7 NC_006150.1 + 578 0.66 0.948231
Target:  5'- cGCGUGUU-CUUggcagaccGCCAaccCCGGGCAGCc -3'
miRNA:   3'- uUGCACGAuGAA--------CGGU---GGCCUGUCGa -5'
29358 3' -55.7 NC_006150.1 + 157338 0.66 0.948231
Target:  5'- --gGUGCUACUggugcUGCCGCUGGugGugGUg -3'
miRNA:   3'- uugCACGAUGA-----ACGGUGGCCugU--CGa -5'
29358 3' -55.7 NC_006150.1 + 36228 0.66 0.934441
Target:  5'- -cCG-GCUAUUcGUCACCuGACAGCUg -3'
miRNA:   3'- uuGCaCGAUGAaCGGUGGcCUGUCGA- -5'
29358 3' -55.7 NC_006150.1 + 175305 0.66 0.929373
Target:  5'- -cCGUGCUGCUuuacuugcUGUCACUGGcuCAGUg -3'
miRNA:   3'- uuGCACGAUGA--------ACGGUGGCCu-GUCGa -5'
29358 3' -55.7 NC_006150.1 + 71097 0.66 0.929373
Target:  5'- cGGCGggaccuaGCUGCUguagugGCgGCCGuGGCAGCg -3'
miRNA:   3'- -UUGCa------CGAUGAa-----CGgUGGC-CUGUCGa -5'
29358 3' -55.7 NC_006150.1 + 84884 0.66 0.924068
Target:  5'- -cUGUGCgggGCUUGCgGCgGGACAuGUUg -3'
miRNA:   3'- uuGCACGa--UGAACGgUGgCCUGU-CGA- -5'
29358 3' -55.7 NC_006150.1 + 101770 0.67 0.918527
Target:  5'- uGACGUGC----UGCCGCaCGGACuGCc -3'
miRNA:   3'- -UUGCACGaugaACGGUG-GCCUGuCGa -5'
29358 3' -55.7 NC_006150.1 + 88163 0.67 0.912748
Target:  5'- -cCGagGCUGCgagGCC-CCGGugGGCg -3'
miRNA:   3'- uuGCa-CGAUGaa-CGGuGGCCugUCGa -5'
29358 3' -55.7 NC_006150.1 + 152036 0.67 0.900489
Target:  5'- gGGgGUGCUGguaUUGCCugCGGugGuGCUg -3'
miRNA:   3'- -UUgCACGAUg--AACGGugGCCugU-CGA- -5'
29358 3' -55.7 NC_006150.1 + 83102 0.67 0.900489
Target:  5'- cGACGUGUUAUUU-UUugUGGACGGCUg -3'
miRNA:   3'- -UUGCACGAUGAAcGGugGCCUGUCGA- -5'
29358 3' -55.7 NC_006150.1 + 213119 0.67 0.894013
Target:  5'- cGugGUGCUGCUUGCUugaggcgugguACUGGAauucguggUAGCa -3'
miRNA:   3'- -UugCACGAUGAACGG-----------UGGCCU--------GUCGa -5'
29358 3' -55.7 NC_006150.1 + 181540 0.68 0.887309
Target:  5'- ---aUGCUACgccGCCGCCcaGGGCAGCc -3'
miRNA:   3'- uugcACGAUGaa-CGGUGG--CCUGUCGa -5'
29358 3' -55.7 NC_006150.1 + 216656 0.68 0.886626
Target:  5'- -uCGcUGCUGCUgacugguUGCuCGCCGuGGCGGCUg -3'
miRNA:   3'- uuGC-ACGAUGA-------ACG-GUGGC-CUGUCGA- -5'
29358 3' -55.7 NC_006150.1 + 69386 0.69 0.842567
Target:  5'- cAACGUGCUggAUUUGCCGCaaGAgAGCa -3'
miRNA:   3'- -UUGCACGA--UGAACGGUGgcCUgUCGa -5'
29358 3' -55.7 NC_006150.1 + 217087 0.7 0.791041
Target:  5'- gGAUGUGCUGCUcuuggucuccauUGCCGC-GGGCAGg- -3'
miRNA:   3'- -UUGCACGAUGA------------ACGGUGgCCUGUCga -5'
29358 3' -55.7 NC_006150.1 + 132075 0.71 0.69479
Target:  5'- gAACG-GCUACUgGCCAUggCGGACGGUg -3'
miRNA:   3'- -UUGCaCGAUGAaCGGUG--GCCUGUCGa -5'
29358 3' -55.7 NC_006150.1 + 88732 0.74 0.54306
Target:  5'- cAGCGcUGCUAC-UGCCACCaccguggacguuGGACGGCg -3'
miRNA:   3'- -UUGC-ACGAUGaACGGUGG------------CCUGUCGa -5'
29358 3' -55.7 NC_006150.1 + 215820 1.06 0.005955
Target:  5'- aAACGUGCUACUUGCCACCGGACAGCUg -3'
miRNA:   3'- -UUGCACGAUGAACGGUGGCCUGUCGA- -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.