miRNA display CGI


Results 21 - 40 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 + 54497 0.68 0.38933
Target:  5'- cCGG-UUCGAGGAC-GCCuUCGACGAc- -3'
miRNA:   3'- -GCCgGAGCUCCUGuCGG-AGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 56243 0.69 0.372205
Target:  5'- cCGGCgCUCGAGcGACuGCaUCGACGuGa -3'
miRNA:   3'- -GCCG-GAGCUC-CUGuCGgAGCUGCuCa -5'
16478 3' -59.4 NC_004084.1 + 45521 0.69 0.363836
Target:  5'- uCGGCCacucCGAGGAC-GCCggGAUGGGUu -3'
miRNA:   3'- -GCCGGa---GCUCCUGuCGGagCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 50927 0.69 0.352341
Target:  5'- uCGGCCUCGAcgucGACGacccugaucuccuCCUCGACGAGg -3'
miRNA:   3'- -GCCGGAGCUc---CUGUc------------GGAGCUGCUCa -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 + 38455 0.69 0.347494
Target:  5'- gCGGCCUCGAGGAUcgcgAGaCCgUGAuCGGGg -3'
miRNA:   3'- -GCCGGAGCUCCUG----UC-GGaGCU-GCUCa -5'
16478 3' -59.4 NC_004084.1 + 57295 0.69 0.347494
Target:  5'- cCGcGCCaUCcAGGACcuCCUCGACGAGg -3'
miRNA:   3'- -GC-CGG-AGcUCCUGucGGAGCUGCUCa -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 + 18306 0.7 0.331683
Target:  5'- uCGGCCUCGuAGGACucgaAGCCgcuggCGugGGcGUu -3'
miRNA:   3'- -GCCGGAGC-UCCUG----UCGGa----GCugCU-CA- -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 + 21395 0.7 0.323979
Target:  5'- aGGCggCGAuGAcCGGCCUCGAUGAGg -3'
miRNA:   3'- gCCGgaGCUcCU-GUCGGAGCUGCUCa -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 + 39784 0.7 0.301669
Target:  5'- aCGGCgaCGAGGuCGGCCaacUCGGCGAc- -3'
miRNA:   3'- -GCCGgaGCUCCuGUCGG---AGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 28097 0.71 0.280563
Target:  5'- aCGGUCaacgguUCGGGGuGC-GCCUCGACGAGc -3'
miRNA:   3'- -GCCGG------AGCUCC-UGuCGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 37097 0.72 0.248019
Target:  5'- cCGaCCUCGAGGuCuGCCUCGAUGAc- -3'
miRNA:   3'- -GCcGGAGCUCCuGuCGGAGCUGCUca -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 + 57631 0.72 0.218662
Target:  5'- -cGUCUCGAGGucGCGcgucGCCUCGACGAGc -3'
miRNA:   3'- gcCGGAGCUCC--UGU----CGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 37408 0.74 0.168811
Target:  5'- aCGcGCCUCGAGGAUGGCCUgCG-CGAu- -3'
miRNA:   3'- -GC-CGGAGCUCCUGUCGGA-GCuGCUca -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 + 5015 0.76 0.122591
Target:  5'- aGGuCCUCGAGGAguuggUAGCCgccCGACGAGg -3'
miRNA:   3'- gCC-GGAGCUCCU-----GUCGGa--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.