miRNA display CGI


Results 1 - 20 of 22 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
12391 3' -54.9 NC_003324.1 + 45237 1.09 0.001115
Target:  5'- cGUCCUACUUCGAACGCGCCAGGCACAu -3'
miRNA:   3'- -CAGGAUGAAGCUUGCGCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 11842 0.79 0.148892
Target:  5'- uGUCCUGCg-CGAcCGgGCCGGGCACGg -3'
miRNA:   3'- -CAGGAUGaaGCUuGCgCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 29477 0.78 0.15308
Target:  5'- -gCCUgGCUgCGGGCGCGUCGGGCGCAu -3'
miRNA:   3'- caGGA-UGAaGCUUGCGCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 16123 0.75 0.26184
Target:  5'- gGUCCUgcgcagggcGCUUCGGuagcgggggcCGCGCCAGGCAUc -3'
miRNA:   3'- -CAGGA---------UGAAGCUu---------GCGCGGUCCGUGu -5'
12391 3' -54.9 NC_003324.1 + 23657 0.74 0.290003
Target:  5'- aGUCCUcgauauGCUUCGccgguauccacGGCGCGCCGGGCuucACAu -3'
miRNA:   3'- -CAGGA------UGAAGC-----------UUGCGCGGUCCG---UGU- -5'
12391 3' -54.9 NC_003324.1 + 28932 0.74 0.297405
Target:  5'- cUCCUGCUUUG-GCGUGCCGccuGGCGCu -3'
miRNA:   3'- cAGGAUGAAGCuUGCGCGGU---CCGUGu -5'
12391 3' -54.9 NC_003324.1 + 48184 0.73 0.353308
Target:  5'- aGUCC-GCUUCGAGCaGCaGCCAcgucGGCGCGa -3'
miRNA:   3'- -CAGGaUGAAGCUUG-CG-CGGU----CCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 42618 0.71 0.445235
Target:  5'- -gUCUGCUuauagucaUCGcGCgGCGCCGGGCGCGg -3'
miRNA:   3'- caGGAUGA--------AGCuUG-CGCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 11455 0.7 0.495932
Target:  5'- cUCC-ACUg-GAACGCGCagGGGCACAu -3'
miRNA:   3'- cAGGaUGAagCUUGCGCGg-UCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 48540 0.69 0.516938
Target:  5'- -gUCUGCUUUGAugGCGCgCAccaucuucucGGCGCGg -3'
miRNA:   3'- caGGAUGAAGCUugCGCG-GU----------CCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 8184 0.69 0.559937
Target:  5'- -cCCUGCUcacugcccggCGGcGCGCGCCuGGCACu -3'
miRNA:   3'- caGGAUGAa---------GCU-UGCGCGGuCCGUGu -5'
12391 3' -54.9 NC_003324.1 + 31213 0.68 0.626019
Target:  5'- -gCCUGCa------GCGCCAGGCGCAa -3'
miRNA:   3'- caGGAUGaagcuugCGCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 13855 0.67 0.635998
Target:  5'- aGUUUUgGCUUCGugcgggagggcguAAUGCGCCAGGCAg- -3'
miRNA:   3'- -CAGGA-UGAAGC-------------UUGCGCGGUCCGUgu -5'
12391 3' -54.9 NC_003324.1 + 21584 0.67 0.681306
Target:  5'- cGUCCgACcUUGAgcaACGCGaCGGGCGCGg -3'
miRNA:   3'- -CAGGaUGaAGCU---UGCGCgGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 37422 0.67 0.692265
Target:  5'- cGUUCUugUugcuaUCGAGCGCauuGCCGcGCACAg -3'
miRNA:   3'- -CAGGAugA-----AGCUUGCG---CGGUcCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 31959 0.66 0.703165
Target:  5'- uGUCCggagcgCGAAgcccagaGCGUCAGGCGCAg -3'
miRNA:   3'- -CAGGaugaa-GCUUg------CGCGGUCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 7316 0.66 0.713994
Target:  5'- -aCCgugACcgUCGuuccGCGCGCCgaGGGCACGc -3'
miRNA:   3'- caGGa--UGa-AGCu---UGCGCGG--UCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 13968 0.66 0.713994
Target:  5'- gGUCCUcgcCUUCGuGACcUGCCuGGCGCAu -3'
miRNA:   3'- -CAGGAu--GAAGC-UUGcGCGGuCCGUGU- -5'
12391 3' -54.9 NC_003324.1 + 15743 0.66 0.735396
Target:  5'- -gCCUugaucGCgucaUCGAGCGCGCCGGGg--- -3'
miRNA:   3'- caGGA-----UGa---AGCUUGCGCGGUCCgugu -5'
12391 3' -54.9 NC_003324.1 + 26007 0.66 0.735396
Target:  5'- -cCCgACUUCGGggugacugaGCGCGCCAauGGCGuCAc -3'
miRNA:   3'- caGGaUGAAGCU---------UGCGCGGU--CCGU-GU- -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.