miRNA display CGI


Results 1 - 20 of 24 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
12802 3' -62.8 NC_003387.1 + 45366 0.66 0.311857
Target:  5'- gACCGcaACCAuGCCGGUGCGGUaCGGc -3'
miRNA:   3'- aUGGCc-UGGU-CGGUCACGCCGgGCUu -5'
12802 3' -62.8 NC_003387.1 + 15551 0.66 0.311857
Target:  5'- gUGCCGGGCC-GCCAGcucggugaccaUGCG-CCCGc- -3'
miRNA:   3'- -AUGGCCUGGuCGGUC-----------ACGCcGGGCuu -5'
12802 3' -62.8 NC_003387.1 + 26934 0.66 0.304434
Target:  5'- cGCCGGGCUGGCCuGUcgGCGGUCa--- -3'
miRNA:   3'- aUGGCCUGGUCGGuCA--CGCCGGgcuu -5'
12802 3' -62.8 NC_003387.1 + 12217 0.66 0.304434
Target:  5'- gUGCCGGGCCAccggcggucGCCAGcgcaGCGGCgCuCGGc -3'
miRNA:   3'- -AUGGCCUGGU---------CGGUCa---CGCCG-G-GCUu -5'
12802 3' -62.8 NC_003387.1 + 47001 0.66 0.302234
Target:  5'- aGCgCGGGCC-GCCuGGUgcucgacuucauugGCGGCCCGGc -3'
miRNA:   3'- aUG-GCCUGGuCGG-UCA--------------CGCCGGGCUu -5'
12802 3' -62.8 NC_003387.1 + 49471 0.66 0.297148
Target:  5'- --aCGGGCgcacuugguuuCGGCCGGUGCGcccGCCCGGc -3'
miRNA:   3'- augGCCUG-----------GUCGGUCACGC---CGGGCUu -5'
12802 3' -62.8 NC_003387.1 + 29409 0.66 0.297148
Target:  5'- cGCCGGGCgCAggaggaggccGCCGcaGCGGCCCGc- -3'
miRNA:   3'- aUGGCCUG-GU----------CGGUcaCGCCGGGCuu -5'
12802 3' -62.8 NC_003387.1 + 30377 0.66 0.297148
Target:  5'- cGCCuGGGCCAGCCccacCGGCgCCGGGa -3'
miRNA:   3'- aUGG-CCUGGUCGGucacGCCG-GGCUU- -5'
12802 3' -62.8 NC_003387.1 + 3646 0.66 0.289997
Target:  5'- cGCCGucGACCGGCUcGUgccccggcugaGCGGCCUGAc -3'
miRNA:   3'- aUGGC--CUGGUCGGuCA-----------CGCCGGGCUu -5'
12802 3' -62.8 NC_003387.1 + 51403 0.66 0.276103
Target:  5'- gGCCGGugACCGGCgAGcgccUGCGGCgCCGc- -3'
miRNA:   3'- aUGGCC--UGGUCGgUC----ACGCCG-GGCuu -5'
12802 3' -62.8 NC_003387.1 + 44201 0.67 0.269358
Target:  5'- cUACCc-GCgAGCCGGU-CGGCCCGAGg -3'
miRNA:   3'- -AUGGccUGgUCGGUCAcGCCGGGCUU- -5'
12802 3' -62.8 NC_003387.1 + 22323 0.67 0.265375
Target:  5'- cGCCGGAUCAgguaacucucccggcGCCGGUGgggcUGGCCCa-- -3'
miRNA:   3'- aUGGCCUGGU---------------CGGUCAC----GCCGGGcuu -5'
12802 3' -62.8 NC_003387.1 + 50764 0.67 0.256267
Target:  5'- aGCUGGcgcugcCCGGCCAGacccGCGGCCgGAu -3'
miRNA:   3'- aUGGCCu-----GGUCGGUCa---CGCCGGgCUu -5'
12802 3' -62.8 NC_003387.1 + 34978 0.67 0.243701
Target:  5'- gAgCGGugUGGCCccugGCGGCCCGGc -3'
miRNA:   3'- aUgGCCugGUCGGuca-CGCCGGGCUu -5'
12802 3' -62.8 NC_003387.1 + 50680 0.67 0.238216
Target:  5'- cACCGcGGCCAGCuCGGcgacggcggccgucgGCGGCaCCGAGc -3'
miRNA:   3'- aUGGC-CUGGUCG-GUCa--------------CGCCG-GGCUU- -5'
12802 3' -62.8 NC_003387.1 + 23865 0.67 0.237613
Target:  5'- gGCCguGGACCGGCgaccCGGUGUGGCuggCCGAc -3'
miRNA:   3'- aUGG--CCUGGUCG----GUCACGCCG---GGCUu -5'
12802 3' -62.8 NC_003387.1 + 47482 0.67 0.237613
Target:  5'- cGCCGucGGCCAGCgGGUcGCGGuucaCCCGAu -3'
miRNA:   3'- aUGGC--CUGGUCGgUCA-CGCC----GGGCUu -5'
12802 3' -62.8 NC_003387.1 + 44526 0.68 0.220109
Target:  5'- gUGCCGGGCCGcCCGGcGCcgcagGGCUCGAAa -3'
miRNA:   3'- -AUGGCCUGGUcGGUCaCG-----CCGGGCUU- -5'
12802 3' -62.8 NC_003387.1 + 5704 0.68 0.208521
Target:  5'- gGCCGGGCCgccaaugaagucgAGCacCAG-GCGGCCCGc- -3'
miRNA:   3'- aUGGCCUGG-------------UCG--GUCaCGCCGGGCuu -5'
12802 3' -62.8 NC_003387.1 + 22567 0.69 0.193386
Target:  5'- cGCgCGGGCCuggucgaggguGGCCucGGUGCGGCCaCGGu -3'
miRNA:   3'- aUG-GCCUGG-----------UCGG--UCACGCCGG-GCUu -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.