miRNA display CGI


Results 1 - 17 of 17 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
12021 3' -54.2 NC_003278.1 + 6367 0.66 0.612439
Target:  5'- aGCUcGCCCAGCUGUaucaGGaucGCA-GCCGc -3'
miRNA:   3'- -CGAcUGGGUCGACAg---CU---UGUaCGGUu -5'
12021 3' -54.2 NC_003278.1 + 14819 0.66 0.612439
Target:  5'- aGCc-GCCCAGCgugGUCGggUugcUGCCGg -3'
miRNA:   3'- -CGacUGGGUCGa--CAGCuuGu--ACGGUu -5'
12021 3' -54.2 NC_003278.1 + 26193 0.66 0.593857
Target:  5'- gGCUGaaccaagaugaguuuGCCCAGCgcGUCGGAgugGCCAAg -3'
miRNA:   3'- -CGAC---------------UGGGUCGa-CAGCUUguaCGGUU- -5'
12021 3' -54.2 NC_003278.1 + 33947 0.66 0.577672
Target:  5'- gGCUGucacCCCAGCgagGUCGGAUGUGgguuuCCAc -3'
miRNA:   3'- -CGACu---GGGUCGa--CAGCUUGUAC-----GGUu -5'
12021 3' -54.2 NC_003278.1 + 14042 0.66 0.56617
Target:  5'- gGCUGACUgGGCgcacgucGUCGAGCAggcGCuCGAg -3'
miRNA:   3'- -CGACUGGgUCGa------CAGCUUGUa--CG-GUU- -5'
12021 3' -54.2 NC_003278.1 + 27278 0.67 0.543356
Target:  5'- cGCggcGugCCAGUUGacggguuuUCGAAgGUGCCAu -3'
miRNA:   3'- -CGa--CugGGUCGAC--------AGCUUgUACGGUu -5'
12021 3' -54.2 NC_003278.1 + 11866 0.67 0.543356
Target:  5'- uGCUGACCggcuGGCUGccUUGGGCAUcGCCGc -3'
miRNA:   3'- -CGACUGGg---UCGAC--AGCUUGUA-CGGUu -5'
12021 3' -54.2 NC_003278.1 + 26837 0.67 0.520851
Target:  5'- gGUUGGCUCGGgcauCUGcaCGAACAUGCCGc -3'
miRNA:   3'- -CGACUGGGUC----GACa-GCUUGUACGGUu -5'
12021 3' -54.2 NC_003278.1 + 14508 0.68 0.487811
Target:  5'- cGCUGGCCUugaAGCUGggCGGGCAguuggcgaccGCCAc -3'
miRNA:   3'- -CGACUGGG---UCGACa-GCUUGUa---------CGGUu -5'
12021 3' -54.2 NC_003278.1 + 21770 0.69 0.445372
Target:  5'- aGCUGACCgggggaCGGUUGUCGAugGUgauggccugcGCCGGg -3'
miRNA:   3'- -CGACUGG------GUCGACAGCUugUA----------CGGUU- -5'
12021 3' -54.2 NC_003278.1 + 6677 0.69 0.425948
Target:  5'- -aUGACgcagCCGGCgguacgcgcgaagcgGUCGGGCAUGCCAGg -3'
miRNA:   3'- cgACUG----GGUCGa--------------CAGCUUGUACGGUU- -5'
12021 3' -54.2 NC_003278.1 + 10258 0.69 0.414935
Target:  5'- --cGACCUugcuGCgGUCGAGCAUGUCGg -3'
miRNA:   3'- cgaCUGGGu---CGaCAGCUUGUACGGUu -5'
12021 3' -54.2 NC_003278.1 + 5631 0.7 0.38581
Target:  5'- cUUGGCCCAgGC-GUCGAGCAUGgCGu -3'
miRNA:   3'- cGACUGGGU-CGaCAGCUUGUACgGUu -5'
12021 3' -54.2 NC_003278.1 + 16578 0.71 0.323303
Target:  5'- cCUGGCCCugAGC-GUCGAGCAgUGCCu- -3'
miRNA:   3'- cGACUGGG--UCGaCAGCUUGU-ACGGuu -5'
12021 3' -54.2 NC_003278.1 + 19700 0.75 0.181951
Target:  5'- cGCUGcGCCUGGCUGUUGAugGcGCCAu -3'
miRNA:   3'- -CGAC-UGGGUCGACAGCUugUaCGGUu -5'
12021 3' -54.2 NC_003278.1 + 30921 0.76 0.144343
Target:  5'- --cGACCCAgcGCUGuUCGAGCGUGCCu- -3'
miRNA:   3'- cgaCUGGGU--CGAC-AGCUUGUACGGuu -5'
12021 3' -54.2 NC_003278.1 + 29767 1.08 0.000693
Target:  5'- gGCUGACCCAGCUGUCGAACAUGCCAAu -3'
miRNA:   3'- -CGACUGGGUCGACAGCUUGUACGGUU- -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.