miRNA display CGI


Results 1 - 20 of 52 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
16162 5' -56.8 NC_004065.1 + 138244 0.67 0.92587
Target:  5'- cGCUCGccGCCGuCGaggagggUCGgGUGUCCGAg -3'
miRNA:   3'- aCGAGCa-UGGU-GCa------GGCgCACAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 195426 0.67 0.902939
Target:  5'- cGCUCccGCCGCGUcgCCGuCGUcggacagGUCCGAg -3'
miRNA:   3'- aCGAGcaUGGUGCA--GGC-GCA-------CAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 206797 0.67 0.90945
Target:  5'- cGCUCGUGUCGCGUCCa-GaGUCCGu -3'
miRNA:   3'- aCGAGCAUGGUGCAGGcgCaCAGGCu -5'
16162 5' -56.8 NC_004065.1 + 208155 0.67 0.913458
Target:  5'- cGUUCGUACC--GUCCGCgGUGuguacaacgaggcaUCCGAc -3'
miRNA:   3'- aCGAGCAUGGugCAGGCG-CAC--------------AGGCU- -5'
16162 5' -56.8 NC_004065.1 + 123500 0.67 0.915142
Target:  5'- uUGgUCG-ACacgaACGUCUGCGgGUCCGGg -3'
miRNA:   3'- -ACgAGCaUGg---UGCAGGCGCaCAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 199247 0.67 0.915142
Target:  5'- cGUcaUCGU-CgGCGUCCGCGUccgCCGAc -3'
miRNA:   3'- aCG--AGCAuGgUGCAGGCGCAca-GGCU- -5'
16162 5' -56.8 NC_004065.1 + 124856 0.67 0.915142
Target:  5'- cGCgaucaucCGcGCCACGUCCGagGUGcCCGGg -3'
miRNA:   3'- aCGa------GCaUGGUGCAGGCg-CACaGGCU- -5'
16162 5' -56.8 NC_004065.1 + 214802 0.67 0.920616
Target:  5'- cGCUCuc-UCACaucaUCCGCGUGUUCGAg -3'
miRNA:   3'- aCGAGcauGGUGc---AGGCGCACAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 120624 0.67 0.92587
Target:  5'- aGCUCGUG--GCGUCCGCcgcggCCGAc -3'
miRNA:   3'- aCGAGCAUggUGCAGGCGcaca-GGCU- -5'
16162 5' -56.8 NC_004065.1 + 121036 0.68 0.891082
Target:  5'- uUGCUCGggGCCGCGaucgUCGCGUacuugGUCgCGAa -3'
miRNA:   3'- -ACGAGCa-UGGUGCa---GGCGCA-----CAG-GCU- -5'
16162 5' -56.8 NC_004065.1 + 133490 0.69 0.863687
Target:  5'- gUGCUggCGUugaUACGUCCGCuacgGUCCGAg -3'
miRNA:   3'- -ACGA--GCAug-GUGCAGGCGca--CAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 199626 0.69 0.856347
Target:  5'- aGCUCGU-CCACGuugUCCGCGa-UCCGc -3'
miRNA:   3'- aCGAGCAuGGUGC---AGGCGCacAGGCu -5'
16162 5' -56.8 NC_004065.1 + 196226 0.75 0.552778
Target:  5'- cGCgUCGUcCCACGUCCGCaUGUCgGGc -3'
miRNA:   3'- aCG-AGCAuGGUGCAGGCGcACAGgCU- -5'
16162 5' -56.8 NC_004065.1 + 122133 0.73 0.611068
Target:  5'- cUGCUCGgagAUCACGUCCGUGaucUG-CCGGa -3'
miRNA:   3'- -ACGAGCa--UGGUGCAGGCGC---ACaGGCU- -5'
16162 5' -56.8 NC_004065.1 + 30599 0.71 0.727623
Target:  5'- cGcCUCGU-CCGCGUUccgaggcagcgaCGCGUGUCCGu -3'
miRNA:   3'- aC-GAGCAuGGUGCAG------------GCGCACAGGCu -5'
16162 5' -56.8 NC_004065.1 + 81096 0.71 0.75559
Target:  5'- aGCUCccugGUACCccacCGUCCGCGaguUGUUCGAg -3'
miRNA:   3'- aCGAG----CAUGGu---GCAGGCGC---ACAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 77788 0.69 0.825181
Target:  5'- gUGCUCGUACCGCGaCaaCGUGUUCc- -3'
miRNA:   3'- -ACGAGCAUGGUGCaGgcGCACAGGcu -5'
16162 5' -56.8 NC_004065.1 + 198454 0.69 0.825181
Target:  5'- ---aCGUcGCCGCGUCCGCGUucggGUCgGAg -3'
miRNA:   3'- acgaGCA-UGGUGCAGGCGCA----CAGgCU- -5'
16162 5' -56.8 NC_004065.1 + 168977 0.69 0.841113
Target:  5'- --gUCGUGCCcucACGgcgaGCGUGUCCGAg -3'
miRNA:   3'- acgAGCAUGG---UGCagg-CGCACAGGCU- -5'
16162 5' -56.8 NC_004065.1 + 109913 0.69 0.856347
Target:  5'- gGCUCGUccGCCGCGgccgCCGuCGcGUCCc- -3'
miRNA:   3'- aCGAGCA--UGGUGCa---GGC-GCaCAGGcu -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.