miRNA display CGI


Results 1 - 20 of 26 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
18314 5' -54.3 NC_004681.1 + 1533 0.66 0.859174
Target:  5'- cCCCuggUGACCGGGC----CAGCCUUc- -3'
miRNA:   3'- aGGG---ACUGGCCCGuuauGUUGGAGcu -5'
18314 5' -54.3 NC_004681.1 + 3759 0.66 0.859174
Target:  5'- -aCUUGACCaucuGGGCG--GCGACgUCGAa -3'
miRNA:   3'- agGGACUGG----CCCGUuaUGUUGgAGCU- -5'
18314 5' -54.3 NC_004681.1 + 47158 0.66 0.8501
Target:  5'- gUUCCUGGCgGGGUGcgcgcucGUGCAcauCCUCGu -3'
miRNA:   3'- -AGGGACUGgCCCGU-------UAUGUu--GGAGCu -5'
18314 5' -54.3 NC_004681.1 + 41984 0.66 0.8501
Target:  5'- -aCCUGACCuacgcggGGGCGAUcucggcCAGCCUUGu -3'
miRNA:   3'- agGGACUGG-------CCCGUUAu-----GUUGGAGCu -5'
18314 5' -54.3 NC_004681.1 + 45193 0.66 0.849261
Target:  5'- cCCCggucuugagcgaGACCGcGGCGAg--GGCCUCGAc -3'
miRNA:   3'- aGGGa-----------CUGGC-CCGUUaugUUGGAGCU- -5'
18314 5' -54.3 NC_004681.1 + 29484 0.66 0.842475
Target:  5'- gUCCCUcACCGGG----ACcACCUCGGu -3'
miRNA:   3'- -AGGGAcUGGCCCguuaUGuUGGAGCU- -5'
18314 5' -54.3 NC_004681.1 + 55457 0.66 0.833801
Target:  5'- cUCCUGGCuCGGGauuGAUGCAgacACCUaCGGa -3'
miRNA:   3'- aGGGACUG-GCCCg--UUAUGU---UGGA-GCU- -5'
18314 5' -54.3 NC_004681.1 + 58911 0.66 0.831158
Target:  5'- cCUCUGuCCGGGUGAggcccaGCAacuccugggcgcgcGCCUCGAc -3'
miRNA:   3'- aGGGACuGGCCCGUUa-----UGU--------------UGGAGCU- -5'
18314 5' -54.3 NC_004681.1 + 52827 0.66 0.824922
Target:  5'- ----aGACCGGGCAGUucagGCaAAUCUCGGu -3'
miRNA:   3'- agggaCUGGCCCGUUA----UG-UUGGAGCU- -5'
18314 5' -54.3 NC_004681.1 + 955 0.67 0.806584
Target:  5'- aCCCUGACCuaccGGCGcUACgAGCCcCGGg -3'
miRNA:   3'- aGGGACUGGc---CCGUuAUG-UUGGaGCU- -5'
18314 5' -54.3 NC_004681.1 + 2920 0.67 0.797144
Target:  5'- -gCCUGGCUGGGCGAcgGCAccGCCa--- -3'
miRNA:   3'- agGGACUGGCCCGUUa-UGU--UGGagcu -5'
18314 5' -54.3 NC_004681.1 + 40226 0.67 0.797144
Target:  5'- -gCCUGucCCGGGCGGUcacCGACCUggCGAc -3'
miRNA:   3'- agGGACu-GGCCCGUUAu--GUUGGA--GCU- -5'
18314 5' -54.3 NC_004681.1 + 57621 0.67 0.787538
Target:  5'- gUCCCUccgccGACUGGGCuacucGAUAaagGACCUCGc -3'
miRNA:   3'- -AGGGA-----CUGGCCCG-----UUAUg--UUGGAGCu -5'
18314 5' -54.3 NC_004681.1 + 56888 0.67 0.787538
Target:  5'- cCCCggagaugGACCGGGU----CAGCUUCGGu -3'
miRNA:   3'- aGGGa------CUGGCCCGuuauGUUGGAGCU- -5'
18314 5' -54.3 NC_004681.1 + 59701 0.67 0.767867
Target:  5'- cCCCUG-CUGGG-AGUGCGGCCUg-- -3'
miRNA:   3'- aGGGACuGGCCCgUUAUGUUGGAgcu -5'
18314 5' -54.3 NC_004681.1 + 49088 0.68 0.747654
Target:  5'- aCCCUGACgCGGGCAuccuccgcacGCAACUgcgUCGc -3'
miRNA:   3'- aGGGACUG-GCCCGUua--------UGUUGG---AGCu -5'
18314 5' -54.3 NC_004681.1 + 44799 0.68 0.747654
Target:  5'- gCCCUGGaggUGGGCAAgaccUACGACaUCGAg -3'
miRNA:   3'- aGGGACUg--GCCCGUU----AUGUUGgAGCU- -5'
18314 5' -54.3 NC_004681.1 + 27498 0.68 0.726988
Target:  5'- aCCCUGACCugGGGCAc----GCCUCa- -3'
miRNA:   3'- aGGGACUGG--CCCGUuauguUGGAGcu -5'
18314 5' -54.3 NC_004681.1 + 52841 0.68 0.716513
Target:  5'- gCCCUGAgcuuCCGGGCGGaagGCuGGCCaUCGGc -3'
miRNA:   3'- aGGGACU----GGCCCGUUa--UG-UUGG-AGCU- -5'
18314 5' -54.3 NC_004681.1 + 63312 0.68 0.716513
Target:  5'- gUCCC--ACCGGGCGAaGCcgAACCUCu- -3'
miRNA:   3'- -AGGGacUGGCCCGUUaUG--UUGGAGcu -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.