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
8140 3' -56.2 NC_001978.2 + 17918 0.66 0.557562
Target:  5'- gACCCuucGCCCGgcacgccGUCAGCGUCCu- -3'
miRNA:   3'- aUGGGcgaCGGGCa------UAGUUGCAGGuu -5'
8140 3' -56.2 NC_001978.2 + 18855 0.66 0.557562
Target:  5'- cGCCUGagcCUGCCCGUcgucGUCAcggACGUUCGGu -3'
miRNA:   3'- aUGGGC---GACGGGCA----UAGU---UGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 15998 0.66 0.539804
Target:  5'- cGCCCGUcgcGCCCGUGUCGcccuugucgcccuucGCGcCCu- -3'
miRNA:   3'- aUGGGCGa--CGGGCAUAGU---------------UGCaGGuu -5'
8140 3' -56.2 NC_001978.2 + 11404 0.66 0.524426
Target:  5'- -uUCCGUUuCCCGggcgCAGCGUCCGAc -3'
miRNA:   3'- auGGGCGAcGGGCaua-GUUGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 24061 0.66 0.524426
Target:  5'- gACCCGUUgcgggaaucgcGCCCGU----GCGUCCGAc -3'
miRNA:   3'- aUGGGCGA-----------CGGGCAuaguUGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 27801 0.66 0.521152
Target:  5'- gUACCCGCUugaguacauggcgaGCCCGgucGUCuccgUGUCCAAc -3'
miRNA:   3'- -AUGGGCGA--------------CGGGCa--UAGuu--GCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 34119 0.66 0.513544
Target:  5'- gUGCCCcuuccgGCgUGCCCGgGUguGCGUCCGc -3'
miRNA:   3'- -AUGGG------CG-ACGGGCaUAguUGCAGGUu -5'
8140 3' -56.2 NC_001978.2 + 19440 0.66 0.502756
Target:  5'- cGCaCCGCuUGCaCGUcacGUCGGCGUCCGu -3'
miRNA:   3'- aUG-GGCG-ACGgGCA---UAGUUGCAGGUu -5'
8140 3' -56.2 NC_001978.2 + 19580 0.67 0.492068
Target:  5'- cGCCgGUcaGCuCCGUGUCgAACGUCCGg -3'
miRNA:   3'- aUGGgCGa-CG-GGCAUAG-UUGCAGGUu -5'
8140 3' -56.2 NC_001978.2 + 40163 0.67 0.481486
Target:  5'- cUGCCCcCUGCCCGUaGUCGAC-UUCGu -3'
miRNA:   3'- -AUGGGcGACGGGCA-UAGUUGcAGGUu -5'
8140 3' -56.2 NC_001978.2 + 28375 0.68 0.430349
Target:  5'- uUACgCCGCUGCCaugugggGUGUCGAC-UCCGu -3'
miRNA:   3'- -AUG-GGCGACGGg------CAUAGUUGcAGGUu -5'
8140 3' -56.2 NC_001978.2 + 7606 0.68 0.430349
Target:  5'- gACCaCGCUGCCCGcAcgggaaagcUCAacggccguacGCGUCCAGu -3'
miRNA:   3'- aUGG-GCGACGGGCaU---------AGU----------UGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 3227 0.68 0.430349
Target:  5'- gGCCCauaCcGCCCGgcUCAGCGUUCGGa -3'
miRNA:   3'- aUGGGc--GaCGGGCauAGUUGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 35538 0.68 0.410803
Target:  5'- aUACCCGCUGCCgacucacUCAGCG-CCGGa -3'
miRNA:   3'- -AUGGGCGACGGgcau---AGUUGCaGGUU- -5'
8140 3' -56.2 NC_001978.2 + 19644 0.69 0.373413
Target:  5'- gUGCCguugCGCUGCCCG--UCuuCGUCCAc -3'
miRNA:   3'- -AUGG----GCGACGGGCauAGuuGCAGGUu -5'
8140 3' -56.2 NC_001978.2 + 40315 0.75 0.155111
Target:  5'- aGCCCGCUgugcGCCCGUcUCAGCGcCUAAc -3'
miRNA:   3'- aUGGGCGA----CGGGCAuAGUUGCaGGUU- -5'
8140 3' -56.2 NC_001978.2 + 3863 0.77 0.106647
Target:  5'- aGCCCGCUGCCCcaugacgucgaGUuggUAGCGUCCGAa -3'
miRNA:   3'- aUGGGCGACGGG-----------CAua-GUUGCAGGUU- -5'
8140 3' -56.2 NC_001978.2 + 34385 1.04 0.000995
Target:  5'- aUACCCGCUGCCCGUAUCAACGUCCAAc -3'
miRNA:   3'- -AUGGGCGACGGGCAUAGUUGCAGGUU- -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.