miRNA display CGI


Results 1 - 20 of 21 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
28391 5' -53.7 NC_005946.1 + 12541 0.66 0.915341
Target:  5'- --aGCGCCAuGCcCCAGgAGguagcGACUGCc -3'
miRNA:   3'- cgaUGUGGU-CGuGGUCgUCa----CUGACG- -5'
28391 5' -53.7 NC_005946.1 + 44711 0.66 0.909108
Target:  5'- cCUugGCUAGgGCCcuGGUGGcccUGACUGCu -3'
miRNA:   3'- cGAugUGGUCgUGG--UCGUC---ACUGACG- -5'
28391 5' -53.7 NC_005946.1 + 51135 0.66 0.902616
Target:  5'- aGCUGCACCAGCcuacACCAGCu---ACaccaGCa -3'
miRNA:   3'- -CGAUGUGGUCG----UGGUCGucacUGa---CG- -5'
28391 5' -53.7 NC_005946.1 + 78987 0.66 0.902616
Target:  5'- gGCgUACGCCAGgGCCGGgGGccacagGGCUugGCg -3'
miRNA:   3'- -CG-AUGUGGUCgUGGUCgUCa-----CUGA--CG- -5'
28391 5' -53.7 NC_005946.1 + 2625 0.67 0.87412
Target:  5'- --cACACCcaggGGCACCuGCGGcaagGACUGg -3'
miRNA:   3'- cgaUGUGG----UCGUGGuCGUCa---CUGACg -5'
28391 5' -53.7 NC_005946.1 + 61644 0.67 0.87412
Target:  5'- cGCUGCACUgggGGCcuuuuUCGGCAGggagGACaGCa -3'
miRNA:   3'- -CGAUGUGG---UCGu----GGUCGUCa---CUGaCG- -5'
28391 5' -53.7 NC_005946.1 + 100930 0.67 0.850232
Target:  5'- ---cCGCCGGCAgagacCCAGCAGagGACaGCg -3'
miRNA:   3'- cgauGUGGUCGU-----GGUCGUCa-CUGaCG- -5'
28391 5' -53.7 NC_005946.1 + 40735 0.68 0.841824
Target:  5'- --gGCGgCGGCGCCgcuAGCGGcgacGACUGCu -3'
miRNA:   3'- cgaUGUgGUCGUGG---UCGUCa---CUGACG- -5'
28391 5' -53.7 NC_005946.1 + 51405 0.68 0.806181
Target:  5'- aGCUGCACCAGCuacACCAGCAc------- -3'
miRNA:   3'- -CGAUGUGGUCG---UGGUCGUcacugacg -5'
28391 5' -53.7 NC_005946.1 + 39826 0.71 0.6746
Target:  5'- gGCUAUgGCCgcGGCugCGGCGGccucucUGACUGCu -3'
miRNA:   3'- -CGAUG-UGG--UCGugGUCGUC------ACUGACG- -5'
28391 5' -53.7 NC_005946.1 + 7349 0.71 0.662849
Target:  5'- uGC-ACGCCGGCACCucuCAGUgcgagugcaccgcGACUGCc -3'
miRNA:   3'- -CGaUGUGGUCGUGGuc-GUCA-------------CUGACG- -5'
28391 5' -53.7 NC_005946.1 + 35274 0.73 0.567634
Target:  5'- cGCUGCACCuggguaggacgGGCAUgGGCgAGgacGGCUGCg -3'
miRNA:   3'- -CGAUGUGG-----------UCGUGgUCG-UCa--CUGACG- -5'
28391 5' -53.7 NC_005946.1 + 51071 0.73 0.567634
Target:  5'- --gGCACCAGCAguuaaugcuCCAGCAGUuAgUGCa -3'
miRNA:   3'- cgaUGUGGUCGU---------GGUCGUCAcUgACG- -5'
28391 5' -53.7 NC_005946.1 + 94048 0.75 0.462462
Target:  5'- uGCUGuCAUCAGgACCAGCagggggaggaggcuGGUGAUUGCc -3'
miRNA:   3'- -CGAU-GUGGUCgUGGUCG--------------UCACUGACG- -5'
28391 5' -53.7 NC_005946.1 + 51192 0.76 0.399798
Target:  5'- aGCUGCACCAGCACCAGCu---ACa-- -3'
miRNA:   3'- -CGAUGUGGUCGUGGUCGucacUGacg -5'
28391 5' -53.7 NC_005946.1 + 51282 0.85 0.121439
Target:  5'- aGCUGCACCAGCACCAGC--UGcaccagcaccaGCUGCa -3'
miRNA:   3'- -CGAUGUGGUCGUGGUCGucAC-----------UGACG- -5'
28391 5' -53.7 NC_005946.1 + 51237 0.85 0.121439
Target:  5'- aGCUGCACCAGCACCAGC--UGcaccagcaccaGCUGCa -3'
miRNA:   3'- -CGAUGUGGUCGUGGUCGucAC-----------UGACG- -5'
28391 5' -53.7 NC_005946.1 + 51168 0.89 0.065852
Target:  5'- aGCUACACCAGCACCAGCugcaccaGCUGCa -3'
miRNA:   3'- -CGAUGUGGUCGUGGUCGucac---UGACG- -5'
28391 5' -53.7 NC_005946.1 + 51502 0.96 0.020373
Target:  5'- -aUGCuCCAGCACCGGCAGUGACUGCa -3'
miRNA:   3'- cgAUGuGGUCGUGGUCGUCACUGACG- -5'
28391 5' -53.7 NC_005946.1 + 51101 1.15 0.001111
Target:  5'- aGCUACACCAGCACCAGCAGUGACUGCa -3'
miRNA:   3'- -CGAUGUGGUCGUGGUCGUCACUGACG- -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.