miRNA display CGI


Results 1 - 20 of 40 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
16286 5' -55.8 NC_004084.1 + 52952 0.66 0.700343
Target:  5'- cGGCGgCUgGGAGCUCGucaacaucuccucugACCGcGUGUCa -3'
miRNA:   3'- aUCGCaGAgCUUCGAGC---------------UGGU-CGCAG- -5'
16286 5' -55.8 NC_004084.1 + 20025 0.66 0.696005
Target:  5'- cGGCG-CUCGAGGacgaCGAUC-GCGUCu -3'
miRNA:   3'- aUCGCaGAGCUUCga--GCUGGuCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 10706 0.66 0.685119
Target:  5'- cGGUG-CUCGGuucuucGCUCGGCuCGGgGUCg -3'
miRNA:   3'- aUCGCaGAGCUu-----CGAGCUG-GUCgCAG- -5'
16286 5' -55.8 NC_004084.1 + 21082 0.66 0.685119
Target:  5'- gGGCGUCgUCGGGaucGC-CGAagcguUCAGCGUCg -3'
miRNA:   3'- aUCGCAG-AGCUU---CGaGCU-----GGUCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 30824 0.66 0.685119
Target:  5'- ----uUCUCGAAGCcguacUUGACCAGCGa- -3'
miRNA:   3'- aucgcAGAGCUUCG-----AGCUGGUCGCag -5'
16286 5' -55.8 NC_004084.1 + 34915 0.66 0.685119
Target:  5'- gAGCa-CUCGAAGCUCccGGCCAucuCGUCa -3'
miRNA:   3'- aUCGcaGAGCUUCGAG--CUGGUc--GCAG- -5'
16286 5' -55.8 NC_004084.1 + 6553 0.66 0.685119
Target:  5'- cGGCGUC-CGGuAGUUCGACU--CGUCg -3'
miRNA:   3'- aUCGCAGaGCU-UCGAGCUGGucGCAG- -5'
16286 5' -55.8 NC_004084.1 + 28960 0.66 0.674182
Target:  5'- -cGCGUCUaCGAgaaaaucuaccAGCgcgCGACCGaCGUCg -3'
miRNA:   3'- auCGCAGA-GCU-----------UCGa--GCUGGUcGCAG- -5'
16286 5' -55.8 NC_004084.1 + 15404 0.66 0.663205
Target:  5'- -uGCGUCUCGuuGgggaacucCUCGAUC-GCGUCg -3'
miRNA:   3'- auCGCAGAGCuuC--------GAGCUGGuCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 19645 0.66 0.652199
Target:  5'- gAGCGcC-CGAAGgUCGuCguGCGUCa -3'
miRNA:   3'- aUCGCaGaGCUUCgAGCuGguCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 12665 0.66 0.648893
Target:  5'- cGGCGUCccgaUCGAgcggacugguucguAGC-CGACCAgcaccGCGUCg -3'
miRNA:   3'- aUCGCAG----AGCU--------------UCGaGCUGGU-----CGCAG- -5'
16286 5' -55.8 NC_004084.1 + 50266 0.67 0.630141
Target:  5'- uUGGCGgcgaggucCUCGAcgucuGC-CGACCAGgCGUCg -3'
miRNA:   3'- -AUCGCa-------GAGCUu----CGaGCUGGUC-GCAG- -5'
16286 5' -55.8 NC_004084.1 + 23825 0.67 0.618007
Target:  5'- gAGCGUCUCcaccgucgcgaugGAGGCagUCGccGCCAGCGcCc -3'
miRNA:   3'- aUCGCAGAG-------------CUUCG--AGC--UGGUCGCaG- -5'
16286 5' -55.8 NC_004084.1 + 27629 0.67 0.60809
Target:  5'- cAGCGUCUCGc-GCUgGAUC-GCGUa -3'
miRNA:   3'- aUCGCAGAGCuuCGAgCUGGuCGCAg -5'
16286 5' -55.8 NC_004084.1 + 3929 0.67 0.60809
Target:  5'- aGGCGUcCUCGAaccGGCUUuugaaGugCAGgGUCg -3'
miRNA:   3'- aUCGCA-GAGCU---UCGAG-----CugGUCgCAG- -5'
16286 5' -55.8 NC_004084.1 + 39384 0.67 0.60809
Target:  5'- gAGCaugGUUUCGAAGUccaguUCGAgcUCGGCGUCg -3'
miRNA:   3'- aUCG---CAGAGCUUCG-----AGCU--GGUCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 48037 0.67 0.60809
Target:  5'- -cGCG-CUCGAucgccuGCUCGACUcuCGUCg -3'
miRNA:   3'- auCGCaGAGCUu-----CGAGCUGGucGCAG- -5'
16286 5' -55.8 NC_004084.1 + 630 0.67 0.597092
Target:  5'- cUGGCGaUCUCGucgugGAGCUCcucgaCGGCGUCg -3'
miRNA:   3'- -AUCGC-AGAGC-----UUCGAGcug--GUCGCAG- -5'
16286 5' -55.8 NC_004084.1 + 36004 0.68 0.575193
Target:  5'- -cGCGUCgUCGGAGC-CGAgaAGCGUg -3'
miRNA:   3'- auCGCAG-AGCUUCGaGCUggUCGCAg -5'
16286 5' -55.8 NC_004084.1 + 30771 0.68 0.575193
Target:  5'- gAGCGaccucCUCGAGGCguacgCGAuCCAGCG-Cg -3'
miRNA:   3'- aUCGCa----GAGCUUCGa----GCU-GGUCGCaG- -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.