miRNA display CGI


Results 1 - 20 of 35 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
19120 3' -56.4 NC_004684.1 + 51409 0.66 0.758687
Target:  5'- --gGCCGGGcGUCCuuGggGaacuGCUGGAg -3'
miRNA:   3'- ccaUGGUCCcCAGGggCuuU----UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 15603 0.67 0.694194
Target:  5'- cGGUGCgCuaccGGGUgCCCGAAGgcaacgcgcgcgagGCCGGGu -3'
miRNA:   3'- -CCAUG-Guc--CCCAgGGGCUUU--------------UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 48969 0.67 0.705687
Target:  5'- gGGUgGCCGGGGcGggcgcgucggugCCCUGcuGGCCGGGc -3'
miRNA:   3'- -CCA-UGGUCCC-Ca-----------GGGGCuuUUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 53905 0.67 0.707768
Target:  5'- uGGUugUgacGGGGGUCaggCGAGGugCGGGg -3'
miRNA:   3'- -CCAugG---UCCCCAGgg-GCUUUugGCCU- -5'
19120 3' -56.4 NC_004684.1 + 3911 0.67 0.707768
Target:  5'- gGGUACCGGGaagaCCCCGcuGACCaccuGGAg -3'
miRNA:   3'- -CCAUGGUCCcca-GGGGCuuUUGG----CCU- -5'
19120 3' -56.4 NC_004684.1 + 52536 0.67 0.707768
Target:  5'- uGGaGCCAGGaGGUgUCCGGc-ACCGGu -3'
miRNA:   3'- -CCaUGGUCC-CCAgGGGCUuuUGGCCu -5'
19120 3' -56.4 NC_004684.1 + 60096 0.66 0.718132
Target:  5'- --cACCGGGccaCCCCGAAGuucuCCGGAa -3'
miRNA:   3'- ccaUGGUCCccaGGGGCUUUu---GGCCU- -5'
19120 3' -56.4 NC_004684.1 + 59877 0.66 0.747699
Target:  5'- cGGU-CCGGGcaGGUccaCCCCGAugcggcggcgcacGAACCGGc -3'
miRNA:   3'- -CCAuGGUCC--CCA---GGGGCU-------------UUUGGCCu -5'
19120 3' -56.4 NC_004684.1 + 22904 0.66 0.757694
Target:  5'- cGGUGCCAGcgacaaggugaccGGGUUCCUGG--ACCGc- -3'
miRNA:   3'- -CCAUGGUC-------------CCCAGGGGCUuuUGGCcu -5'
19120 3' -56.4 NC_004684.1 + 60362 0.67 0.686844
Target:  5'- cGGUGCCAGGucGGUCaggUUGGGcauGCCGGGg -3'
miRNA:   3'- -CCAUGGUCC--CCAGg--GGCUUu--UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 62786 0.67 0.665723
Target:  5'- uGGUGCCugcccggcGGGGUUgCCGGgcAGGCgGGGg -3'
miRNA:   3'- -CCAUGGu-------CCCCAGgGGCU--UUUGgCCU- -5'
19120 3' -56.4 NC_004684.1 + 38815 0.67 0.665723
Target:  5'- cGGUGCCcgccuGGcGGUgCCCGAcgGCCuGGu -3'
miRNA:   3'- -CCAUGGu----CC-CCAgGGGCUuuUGG-CCu -5'
19120 3' -56.4 NC_004684.1 + 39735 0.74 0.319987
Target:  5'- --cACCAGGGuGUCCaCCGuggucauGAGACCGGGu -3'
miRNA:   3'- ccaUGGUCCC-CAGG-GGC-------UUUUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 20762 0.71 0.449479
Target:  5'- cGGUGCCguccacaccggAGGcGGUggCCCCGAAGccACCGGc -3'
miRNA:   3'- -CCAUGG-----------UCC-CCA--GGGGCUUU--UGGCCu -5'
19120 3' -56.4 NC_004684.1 + 35363 0.7 0.475537
Target:  5'- cGGUGCCAgcuguGGGcGUUCCCGcAAcagggcaaccugguGGCCGGAu -3'
miRNA:   3'- -CCAUGGU-----CCC-CAGGGGC-UU--------------UUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 51306 0.7 0.508369
Target:  5'- cGGUGCCAGGaacUCCCGGucACCGGc -3'
miRNA:   3'- -CCAUGGUCCccaGGGGCUuuUGGCCu -5'
19120 3' -56.4 NC_004684.1 + 52425 0.7 0.508369
Target:  5'- cGGUccagGCCGGGGGUCUcgaugucggCCGcc-ACCGGGa -3'
miRNA:   3'- -CCA----UGGUCCCCAGG---------GGCuuuUGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 5312 0.7 0.518508
Target:  5'- uGUACCAGGGuUCCCCGAcGAAUCc-- -3'
miRNA:   3'- cCAUGGUCCCcAGGGGCU-UUUGGccu -5'
19120 3' -56.4 NC_004684.1 + 2853 0.69 0.539019
Target:  5'- uGG-ACCAcGGGUUCCUGGucgcGCCGGAc -3'
miRNA:   3'- -CCaUGGUcCCCAGGGGCUuu--UGGCCU- -5'
19120 3' -56.4 NC_004684.1 + 65469 0.69 0.559799
Target:  5'- cGGUACCAGG----CCCGGcAGGCCGGGu -3'
miRNA:   3'- -CCAUGGUCCccagGGGCU-UUUGGCCU- -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.