miRNA display CGI


Results 1 - 18 of 18 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
21310 5' -57 NC_004778.3 + 121129 0.65 0.863762
Target:  5'- aGGCGGCGCCGgGgcagcg-GGcgcGGCCCg -3'
miRNA:   3'- -CCGUCGUGGUgCaucaacaCC---CCGGG- -5'
21310 5' -57 NC_004778.3 + 2048 0.66 0.856872
Target:  5'- cGGCcGCcaccgcaGCCGCGUuccucaUUGUGGGGCg- -3'
miRNA:   3'- -CCGuCG-------UGGUGCAuc----AACACCCCGgg -5'
21310 5' -57 NC_004778.3 + 6215 0.66 0.841789
Target:  5'- uGguGCAuCCGCGUaugaaaacAGUcGU-GGGCCCg -3'
miRNA:   3'- cCguCGU-GGUGCA--------UCAaCAcCCCGGG- -5'
21310 5' -57 NC_004778.3 + 108034 0.66 0.841789
Target:  5'- cGCAGC-CCACGUGcuUUGcGGcaagauGGCCCa -3'
miRNA:   3'- cCGUCGuGGUGCAUc-AACaCC------CCGGG- -5'
21310 5' -57 NC_004778.3 + 102174 0.66 0.829394
Target:  5'- aGGCGGCGCCAaucaaauucgaGGGGUCCu -3'
miRNA:   3'- -CCGUCGUGGUgcaucaaca--CCCCGGG- -5'
21310 5' -57 NC_004778.3 + 26989 0.66 0.825171
Target:  5'- cGCAGCGCgCGCGUAGgagccaUGUcaaaacccgcGcGGCCCa -3'
miRNA:   3'- cCGUCGUG-GUGCAUCa-----ACA----------CcCCGGG- -5'
21310 5' -57 NC_004778.3 + 49345 0.66 0.824321
Target:  5'- uGCGGCACCACGUcucGUUugaccaugucaaaGUcgagguaguuGGGGCCg -3'
miRNA:   3'- cCGUCGUGGUGCAu--CAA-------------CA----------CCCCGGg -5'
21310 5' -57 NC_004778.3 + 15614 0.67 0.816594
Target:  5'- cGGCAGCACUuugGCGUGGUcgcgcgGaGGcGGCgCu -3'
miRNA:   3'- -CCGUCGUGG---UGCAUCAa-----CaCC-CCGgG- -5'
21310 5' -57 NC_004778.3 + 110276 0.67 0.807849
Target:  5'- aGGCAGUuucgaauuaauGCaCugGcGGUUGccGGGGCCUu -3'
miRNA:   3'- -CCGUCG-----------UG-GugCaUCAACa-CCCCGGG- -5'
21310 5' -57 NC_004778.3 + 74816 0.67 0.798046
Target:  5'- cGGCAaguacaccgccuuGCGCC-CGUAGUcgGUGGcGCCg -3'
miRNA:   3'- -CCGU-------------CGUGGuGCAUCAa-CACCcCGGg -5'
21310 5' -57 NC_004778.3 + 107759 0.68 0.739733
Target:  5'- cGCAGCACCGCGUcgcgcucgucgGGGGCg- -3'
miRNA:   3'- cCGUCGUGGUGCAucaaca-----CCCCGgg -5'
21310 5' -57 NC_004778.3 + 77929 0.68 0.731899
Target:  5'- cGGCAGCcuaacgcugauugAUCACu---UUGUGGGGCUCa -3'
miRNA:   3'- -CCGUCG-------------UGGUGcaucAACACCCCGGG- -5'
21310 5' -57 NC_004778.3 + 13432 0.68 0.726974
Target:  5'- uGGCacAGCACCAuuuUGUacauggcccaGGUUGUGguagugaacacguacGGGCCCa -3'
miRNA:   3'- -CCG--UCGUGGU---GCA----------UCAACAC---------------CCCGGG- -5'
21310 5' -57 NC_004778.3 + 53159 0.69 0.703071
Target:  5'- cGGCGGUugCugugGCGgcGGUUGcggcGGGGCCUg -3'
miRNA:   3'- -CCGUCGugG----UGCa-UCAACa---CCCCGGG- -5'
21310 5' -57 NC_004778.3 + 114831 0.7 0.631829
Target:  5'- aGCAGCggGCCuACGUGacuaaGUGGGGCCg -3'
miRNA:   3'- cCGUCG--UGG-UGCAUcaa--CACCCCGGg -5'
21310 5' -57 NC_004778.3 + 32945 0.71 0.539543
Target:  5'- gGGCGGacgacacCGCCGCGUGGcUGUGcGGCCg -3'
miRNA:   3'- -CCGUC-------GUGGUGCAUCaACACcCCGGg -5'
21310 5' -57 NC_004778.3 + 15558 0.72 0.530619
Target:  5'- cGGCGGCGCCAac-GGUgcuccaGUGGGGCg- -3'
miRNA:   3'- -CCGUCGUGGUgcaUCAa-----CACCCCGgg -5'
21310 5' -57 NC_004778.3 + 39383 1.14 0.000895
Target:  5'- gGGCAGCACCACGUAGUUGUGGGGCCCg -3'
miRNA:   3'- -CCGUCGUGGUGCAUCAACACCCCGGG- -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.