miRNA display CGI


Results 1 - 20 of 21 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
11995 3' -56.8 NC_003278.1 + 13277 0.66 0.488789
Target:  5'- aCGAUGGCcagcAGGuCC-GC-CGGGGCGCu -3'
miRNA:   3'- -GUUGCCGu---UCCuGGaCGaGCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 32904 0.66 0.482449
Target:  5'- cCAugGGCAcuGGuGACC-GCUUGugcguggcggucccaAGGCACg -3'
miRNA:   3'- -GUugCCGU--UC-CUGGaCGAGC---------------UCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 19969 0.66 0.478244
Target:  5'- aCAGCGGCAGGGugcggGCCUGUUgcCGcaGCGCc -3'
miRNA:   3'- -GUUGCCGUUCC-----UGGACGA--GCucCGUG- -5'
11995 3' -56.8 NC_003278.1 + 31165 0.66 0.467813
Target:  5'- gGGCGGCcuGGACCaUGUUCucGGCcCg -3'
miRNA:   3'- gUUGCCGuuCCUGG-ACGAGcuCCGuG- -5'
11995 3' -56.8 NC_003278.1 + 13206 0.66 0.44731
Target:  5'- gCAACGGCAGcgccccggcGGACCUGCU---GGC-Ca -3'
miRNA:   3'- -GUUGCCGUU---------CCUGGACGAgcuCCGuG- -5'
11995 3' -56.8 NC_003278.1 + 26855 0.66 0.44731
Target:  5'- -cGCGGUGAGGucgACCgcaucaucGC-CGAGGCGCu -3'
miRNA:   3'- guUGCCGUUCC---UGGa-------CGaGCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 32328 0.67 0.437247
Target:  5'- gCAGCGGCAugcggccgAGGAUgUcGC-CGAcGGCGCg -3'
miRNA:   3'- -GUUGCCGU--------UCCUGgA-CGaGCU-CCGUG- -5'
11995 3' -56.8 NC_003278.1 + 4861 0.67 0.427315
Target:  5'- gCGGCuGGCGAGGGuCCcGUUCuuGGCGCu -3'
miRNA:   3'- -GUUG-CCGUUCCU-GGaCGAGcuCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 2926 0.67 0.40786
Target:  5'- -cGCGGCAAGGACUUcGC-CGAacaGGC-Cg -3'
miRNA:   3'- guUGCCGUUCCUGGA-CGaGCU---CCGuG- -5'
11995 3' -56.8 NC_003278.1 + 6847 0.67 0.40786
Target:  5'- --cCGGCAucGAUCUGCUCaAGcGCGCg -3'
miRNA:   3'- guuGCCGUucCUGGACGAGcUC-CGUG- -5'
11995 3' -56.8 NC_003278.1 + 9801 0.68 0.379741
Target:  5'- uGAUGGUAAGcGGCCgcuccgGUgauagCGGGGCGCu -3'
miRNA:   3'- gUUGCCGUUC-CUGGa-----CGa----GCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 13940 0.68 0.343467
Target:  5'- aCAACGGUcucgacgAGGaGACCgUGCUCGAGccgaGCGCc -3'
miRNA:   3'- -GUUGCCG-------UUC-CUGG-ACGAGCUC----CGUG- -5'
11995 3' -56.8 NC_003278.1 + 29531 0.7 0.288217
Target:  5'- gGACuGGCuguGGACCUGCUUc-GGCGCc -3'
miRNA:   3'- gUUG-CCGuu-CCUGGACGAGcuCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 19429 0.71 0.239554
Target:  5'- -cGCGGUGcuGACCUGCUCcaGGGCGCc -3'
miRNA:   3'- guUGCCGUucCUGGACGAGc-UCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 2065 0.72 0.203482
Target:  5'- gCAGCGGCAuccgcguacccAGGcgagaacgaGgCUGCUCGAGGUAUg -3'
miRNA:   3'- -GUUGCCGU-----------UCC---------UgGACGAGCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 7249 0.73 0.167442
Target:  5'- -cGCGGCAAuGACC-GCaacuUCGAGGCGCg -3'
miRNA:   3'- guUGCCGUUcCUGGaCG----AGCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 13214 0.73 0.167442
Target:  5'- aCAACGGCAGgcgauGGGCUgacgGC-CGAGGCAUc -3'
miRNA:   3'- -GUUGCCGUU-----CCUGGa---CGaGCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 5692 0.74 0.141217
Target:  5'- aGGCGGuCGAGGGCCUggcGCUUGAGGauCGCg -3'
miRNA:   3'- gUUGCC-GUUCCUGGA---CGAGCUCC--GUG- -5'
11995 3' -56.8 NC_003278.1 + 21750 0.74 0.141217
Target:  5'- uCGAUGGUGAuGGCCUGCgcCGGGGCGCu -3'
miRNA:   3'- -GUUGCCGUUcCUGGACGa-GCUCCGUG- -5'
11995 3' -56.8 NC_003278.1 + 10563 0.79 0.063959
Target:  5'- gCGAgGGCAgcacgAGGGCCUgGCUCGAgGGCGCg -3'
miRNA:   3'- -GUUgCCGU-----UCCUGGA-CGAGCU-CCGUG- -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.