miRNA display CGI


Results 1 - 20 of 43 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
16478 3' -59.4 NC_004084.1 + 1421 0.66 0.502062
Target:  5'- --cCCUCGAGGGCuacgAG-UUCGACGAGUa -3'
miRNA:   3'- gccGGAGCUCCUG----UCgGAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 2819 0.7 0.308972
Target:  5'- aGGCCgagaaCGAGGaACAGCacgUUGGCGAGg -3'
miRNA:   3'- gCCGGa----GCUCC-UGUCGg--AGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 5015 0.76 0.122591
Target:  5'- aGGuCCUCGAGGAguuggUAGCCgccCGACGAGg -3'
miRNA:   3'- gCC-GGAGCUCCU-----GUCGGa--GCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 5734 0.69 0.339522
Target:  5'- aGGuCCUCGAucgGGAUgaucGCCUCGACGAc- -3'
miRNA:   3'- gCC-GGAGCU---CCUGu---CGGAGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 7711 0.7 0.330907
Target:  5'- gCGGaaguaccCCUCGAGGACGuccuucGCCUCGcugGCGAGc -3'
miRNA:   3'- -GCC-------GGAGCUCCUGU------CGGAGC---UGCUCa -5'
16478 3' -59.4 NC_004084.1 + 8147 0.69 0.347494
Target:  5'- uCGGCagacgUCGAGGACcucGCCgccaacggCGACGAGg -3'
miRNA:   3'- -GCCGg----AGCUCCUGu--CGGa-------GCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 8944 0.66 0.522268
Target:  5'- -cGCCgacgacucCGAGGACAGCggCGACGAa- -3'
miRNA:   3'- gcCGGa-------GCUCCUGUCGgaGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 8976 0.75 0.155968
Target:  5'- aCGGCgggaCGAGGGCAGCUacgaguUCGACGAGg -3'
miRNA:   3'- -GCCGga--GCUCCUGUCGG------AGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 10476 0.72 0.241898
Target:  5'- aCGGCCU-GAcGGACGGCCUCGAgCGu-- -3'
miRNA:   3'- -GCCGGAgCU-CCUGUCGGAGCU-GCuca -5'
16478 3' -59.4 NC_004084.1 + 10931 0.66 0.54278
Target:  5'- gGGCCUCGAGGuCAaaUgggaUGGCGAGUc -3'
miRNA:   3'- gCCGGAGCUCCuGUcgGa---GCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 13682 0.67 0.492088
Target:  5'- aGGCCgUCGuaGAUGGCgUCGAUGAGUc -3'
miRNA:   3'- gCCGG-AGCucCUGUCGgAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 15733 0.67 0.482206
Target:  5'- uCGGUgaUCGcuGGCAGCCUCGcgcCGAGUa -3'
miRNA:   3'- -GCCGg-AGCucCUGUCGGAGCu--GCUCA- -5'
16478 3' -59.4 NC_004084.1 + 16045 0.67 0.462737
Target:  5'- -uGUC-CGAGGAC-GCaCUCGAUGAGUg -3'
miRNA:   3'- gcCGGaGCUCCUGuCG-GAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 16286 0.66 0.512124
Target:  5'- gCGGUgCUCGuGcAUcGCCUCGACGAGa -3'
miRNA:   3'- -GCCG-GAGCuCcUGuCGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 16413 0.68 0.398085
Target:  5'- aCGGCCacUCGAGcaaaGACGGCgUCGAUGuGg -3'
miRNA:   3'- -GCCGG--AGCUC----CUGUCGgAGCUGCuCa -5'
16478 3' -59.4 NC_004084.1 + 18306 0.7 0.331683
Target:  5'- uCGGCCUCGuAGGACucgaAGCCgcuggCGugGGcGUu -3'
miRNA:   3'- -GCCGGAGC-UCCUG----UCGGa----GCugCU-CA- -5'
16478 3' -59.4 NC_004084.1 + 20024 0.66 0.54278
Target:  5'- uCGGCgCUCGAGGACGacgaucgcGUCUCGucaguCGAu- -3'
miRNA:   3'- -GCCG-GAGCUCCUGU--------CGGAGCu----GCUca -5'
16478 3' -59.4 NC_004084.1 + 21133 0.67 0.449358
Target:  5'- uGGCCUCccaGAGGACguccuggauugucgAGagcgaguCCUCGACGAGc -3'
miRNA:   3'- gCCGGAG---CUCCUG--------------UC-------GGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 21395 0.7 0.323979
Target:  5'- aGGCggCGAuGAcCGGCCUCGAUGAGg -3'
miRNA:   3'- gCCGgaGCUcCU-GUCGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 25415 0.67 0.491095
Target:  5'- aCGGuggucuCCUCGAGGGCAGCUUgaaucacUGcCGGGUa -3'
miRNA:   3'- -GCC------GGAGCUCCUGUCGGA-------GCuGCUCA- -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.