miRNA display CGI


Results 1 - 20 of 28 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
29306 3' -52.6 NC_006150.1 + 81411 1.13 0.005783
Target:  5'- cACGAAAAUGUCCUCCACGUCCUCCCCg -3'
miRNA:   3'- -UGCUUUUACAGGAGGUGCAGGAGGGG- -5'
29306 3' -52.6 NC_006150.1 + 180733 0.75 0.731183
Target:  5'- -------cGUCCUCCuCGUCCUCCgCCa -3'
miRNA:   3'- ugcuuuuaCAGGAGGuGCAGGAGG-GG- -5'
29306 3' -52.6 NC_006150.1 + 51987 0.74 0.805505
Target:  5'- aGCGAAAccaggGUCCUCCuuugCCUCCCUg -3'
miRNA:   3'- -UGCUUUua---CAGGAGGugcaGGAGGGG- -5'
29306 3' -52.6 NC_006150.1 + 121861 0.73 0.822719
Target:  5'- cGCGGucccGUCCUCCGCaucuUCCUCCUCu -3'
miRNA:   3'- -UGCUuuuaCAGGAGGUGc---AGGAGGGG- -5'
29306 3' -52.6 NC_006150.1 + 34627 0.72 0.877255
Target:  5'- uGCGuGAGU-UCUUCUggGUCCUCCCCu -3'
miRNA:   3'- -UGCuUUUAcAGGAGGugCAGGAGGGG- -5'
29306 3' -52.6 NC_006150.1 + 108314 0.72 0.897534
Target:  5'- gACGAGGAggaagaagGUCCUCCAauuacUCCUCCUa -3'
miRNA:   3'- -UGCUUUUa-------CAGGAGGUgc---AGGAGGGg -5'
29306 3' -52.6 NC_006150.1 + 183932 0.71 0.921401
Target:  5'- -gGAGAAUGUCCUCCGCGagCggcaCCa -3'
miRNA:   3'- ugCUUUUACAGGAGGUGCagGagg-GG- -5'
29306 3' -52.6 NC_006150.1 + 107087 0.7 0.945996
Target:  5'- uUGggGAUGUC--CCGCGUCgUaCCCCg -3'
miRNA:   3'- uGCuuUUACAGgaGGUGCAGgA-GGGG- -5'
29306 3' -52.6 NC_006150.1 + 203333 0.7 0.945996
Target:  5'- gACGAAGGUGcUCCUCCuCGcCgUCgCCg -3'
miRNA:   3'- -UGCUUUUAC-AGGAGGuGCaGgAGgGG- -5'
29306 3' -52.6 NC_006150.1 + 207135 0.7 0.95022
Target:  5'- uUGGAGAUG-CCUCCGCauuGUCCUCaucgaaCCu -3'
miRNA:   3'- uGCUUUUACaGGAGGUG---CAGGAGg-----GG- -5'
29306 3' -52.6 NC_006150.1 + 148162 0.7 0.95022
Target:  5'- --cAAAAUGUCCUCCacaguaACGUCCaaagacauaaaUCCCUg -3'
miRNA:   3'- ugcUUUUACAGGAGG------UGCAGG-----------AGGGG- -5'
29306 3' -52.6 NC_006150.1 + 32447 0.69 0.954219
Target:  5'- cCGugGAUGUUCUUUACuGUCCUCgCCa -3'
miRNA:   3'- uGCuuUUACAGGAGGUG-CAGGAGgGG- -5'
29306 3' -52.6 NC_006150.1 + 168448 0.68 0.976227
Target:  5'- uACGAAAAgauuUCCUaaCCGCcUCCUCgCCCa -3'
miRNA:   3'- -UGCUUUUac--AGGA--GGUGcAGGAG-GGG- -5'
29306 3' -52.6 NC_006150.1 + 36039 0.68 0.978583
Target:  5'- aGC-AAAGUGagCUCgGCGUCCUCCagCCg -3'
miRNA:   3'- -UGcUUUUACagGAGgUGCAGGAGG--GG- -5'
29306 3' -52.6 NC_006150.1 + 181506 0.68 0.980761
Target:  5'- -------cGcCCUCCGCGUCCgCCUCg -3'
miRNA:   3'- ugcuuuuaCaGGAGGUGCAGGaGGGG- -5'
29306 3' -52.6 NC_006150.1 + 53971 0.68 0.980761
Target:  5'- aGCGAgguAAAUGUUCUCggugCACGUCCaggaaaauuccuUUCCCg -3'
miRNA:   3'- -UGCU---UUUACAGGAG----GUGCAGG------------AGGGG- -5'
29306 3' -52.6 NC_006150.1 + 47690 0.67 0.984616
Target:  5'- gGCGAcg--G-CggCCGCGUCCUCCUCg -3'
miRNA:   3'- -UGCUuuuaCaGgaGGUGCAGGAGGGG- -5'
29306 3' -52.6 NC_006150.1 + 53605 0.67 0.984616
Target:  5'- uCGggGAaGUcCCUCCGCGUCCUg--- -3'
miRNA:   3'- uGCuuUUaCA-GGAGGUGCAGGAgggg -5'
29306 3' -52.6 NC_006150.1 + 199694 0.67 0.986943
Target:  5'- uCGGAAGgagcgcuuuccauguUGUUCUCgGCGUUCUCCUg -3'
miRNA:   3'- uGCUUUU---------------ACAGGAGgUGCAGGAGGGg -5'
29306 3' -52.6 NC_006150.1 + 127612 0.67 0.987705
Target:  5'- -aGGAuccacGUGUCCUCCAUGaUCCUUacaguaggugcaaCCCa -3'
miRNA:   3'- ugCUUu----UACAGGAGGUGC-AGGAG-------------GGG- -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.