miRNA display CGI


Results 1 - 20 of 29 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
23188 3' -58.4 NC_005259.1 + 1031 0.69 0.393947
Target:  5'- gUAGCGcgCgcaGCgGCGUGGCcACcGCCGCg -3'
miRNA:   3'- -GUCGCuaGa--CG-CGCACCG-UGuCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 1873 0.7 0.326372
Target:  5'- -uGCGGUC-GUGCGUGaGCACcgcugugAGCCGCu -3'
miRNA:   3'- guCGCUAGaCGCGCAC-CGUG-------UCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 2638 1.09 0.000515
Target:  5'- gCAGCGAUCUGCGCGUGGCACAGCCACg -3'
miRNA:   3'- -GUCGCUAGACGCGCACCGUGUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 3912 0.67 0.478856
Target:  5'- uCAGuCGAgcUCgGCuCGUGGCACGGUCAg -3'
miRNA:   3'- -GUC-GCU--AGaCGcGCACCGUGUCGGUg -5'
23188 3' -58.4 NC_005259.1 + 6165 0.67 0.519383
Target:  5'- -cGCGAggUCgaGCGCGcGGUugacgaGCAGCCGCu -3'
miRNA:   3'- guCGCU--AGa-CGCGCaCCG------UGUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 7071 0.66 0.550642
Target:  5'- gCAGCucGGUCUcucGCGCG-GGUGCcggGGCCACc -3'
miRNA:   3'- -GUCG--CUAGA---CGCGCaCCGUG---UCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 7250 0.71 0.289856
Target:  5'- cCGGCGAgaUCUGUGCGgcGGCAaucaccGCCGCa -3'
miRNA:   3'- -GUCGCU--AGACGCGCa-CCGUgu----CGGUG- -5'
23188 3' -58.4 NC_005259.1 + 8231 0.66 0.561193
Target:  5'- uCGGCGAgguugggCUGCGCGaacagauCAGCCGCg -3'
miRNA:   3'- -GUCGCUa------GACGCGCaccgu--GUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 8585 0.68 0.448544
Target:  5'- --uCGAUCUGCucggGgGUGGCccacgggGCGGCCACg -3'
miRNA:   3'- gucGCUAGACG----CgCACCG-------UGUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 9716 0.68 0.449505
Target:  5'- cCAGCGGUgUGCagaccuacgcuGuCGUGGCGgCAGCgGCg -3'
miRNA:   3'- -GUCGCUAgACG-----------C-GCACCGU-GUCGgUG- -5'
23188 3' -58.4 NC_005259.1 + 10082 0.69 0.411972
Target:  5'- uCGGCGGUCUugucgucggcggGCGCgGUGGCAgcguCGGCCu- -3'
miRNA:   3'- -GUCGCUAGA------------CGCG-CACCGU----GUCGGug -5'
23188 3' -58.4 NC_005259.1 + 17350 0.67 0.523512
Target:  5'- aGGCGAaCggguugccgcgcggGCGCGUcgGGCACGGgCGCg -3'
miRNA:   3'- gUCGCUaGa-------------CGCGCA--CCGUGUCgGUG- -5'
23188 3' -58.4 NC_005259.1 + 18849 0.69 0.421174
Target:  5'- uGGCGAUCcgGCGCGUGaGCgaGCGGuggaaugcCCGCa -3'
miRNA:   3'- gUCGCUAGa-CGCGCAC-CG--UGUC--------GGUG- -5'
23188 3' -58.4 NC_005259.1 + 21239 0.66 0.547488
Target:  5'- aUAGCGG-CUGCGCGaUGGCcuuuuggaaaucgcGCAGCgGu -3'
miRNA:   3'- -GUCGCUaGACGCGC-ACCG--------------UGUCGgUg -5'
23188 3' -58.4 NC_005259.1 + 25053 0.67 0.509116
Target:  5'- aCAGCG-UCgGCGaugGGCGgGGCCGCc -3'
miRNA:   3'- -GUCGCuAGaCGCgcaCCGUgUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 26389 0.66 0.576055
Target:  5'- uCGGCGGUCaugagcccgaugucGCGCGUaGGCACcucGGCCcCg -3'
miRNA:   3'- -GUCGCUAGa-------------CGCGCA-CCGUG---UCGGuG- -5'
23188 3' -58.4 NC_005259.1 + 27334 0.66 0.570737
Target:  5'- gAGCGGgaUCUGCaccgcguGCGUGGCcACcGCgCACa -3'
miRNA:   3'- gUCGCU--AGACG-------CGCACCG-UGuCG-GUG- -5'
23188 3' -58.4 NC_005259.1 + 32451 0.72 0.249604
Target:  5'- gGGUGAUCUGCgGUGUGGgAuucCAGCCAa -3'
miRNA:   3'- gUCGCUAGACG-CGCACCgU---GUCGGUg -5'
23188 3' -58.4 NC_005259.1 + 38563 0.7 0.335024
Target:  5'- -cGCGAUgaGC-CGUGGCuguuCAGCUACg -3'
miRNA:   3'- guCGCUAgaCGcGCACCGu---GUCGGUG- -5'
23188 3' -58.4 NC_005259.1 + 40990 0.71 0.289856
Target:  5'- gGGCGGggucgccggggUUGCGCGcguUGGC-CAGCCACg -3'
miRNA:   3'- gUCGCUa----------GACGCGC---ACCGuGUCGGUG- -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.