miRNA display CGI


Results 1 - 20 of 24 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
18331 3' -53.1 NC_004681.1 + 27211 0.66 0.893753
Target:  5'- aGC-CCGGAugaGCUUgcCUCCAccGGGUGCGa -3'
miRNA:   3'- -CGuGGCCU---UGAA--GAGGUucUCCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 22816 0.66 0.889473
Target:  5'- cGUGCCGGug-UUCUgggucugugcccacaCCAGGGGGCGCc -3'
miRNA:   3'- -CGUGGCCuugAAGA---------------GGUUCUCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 19463 0.66 0.886567
Target:  5'- gGUAcCCGGGAag-UUCCAAG-GGCACc -3'
miRNA:   3'- -CGU-GGCCUUgaaGAGGUUCuCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 18249 0.66 0.879127
Target:  5'- cCGCCuccaGGAGCUUCaggagcggcaacUCCGGGcgcGGCACGg -3'
miRNA:   3'- cGUGG----CCUUGAAG------------AGGUUCu--CCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 62454 0.67 0.855335
Target:  5'- -aACCcGAAUgg--CCGAGGGGCACGa -3'
miRNA:   3'- cgUGGcCUUGaagaGGUUCUCCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 34859 0.67 0.85284
Target:  5'- -uGgCGGAGCUUCUUgcccccuacuucgaCAAGGGGCGgCGg -3'
miRNA:   3'- cgUgGCCUUGAAGAG--------------GUUCUCCGU-GC- -5'
18331 3' -53.1 NC_004681.1 + 2658 0.67 0.838318
Target:  5'- aGC-CCGGGucuccuACgUCUCCGAGcgucacuGGCGCGa -3'
miRNA:   3'- -CGuGGCCU------UGaAGAGGUUCu------CCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 33318 0.67 0.838318
Target:  5'- aCGCCGGGACgUUCgccgUCCA--GGGCACc -3'
miRNA:   3'- cGUGGCCUUG-AAG----AGGUucUCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 18301 0.68 0.82045
Target:  5'- aCAcCCGGGGgUgcgCCGGGAGGCGCu -3'
miRNA:   3'- cGU-GGCCUUgAagaGGUUCUCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 17876 0.68 0.801807
Target:  5'- gGCugCGGAAC--CUCCAuGAGGUucuCGc -3'
miRNA:   3'- -CGugGCCUUGaaGAGGUuCUCCGu--GC- -5'
18331 3' -53.1 NC_004681.1 + 29812 0.68 0.792219
Target:  5'- gGCGCgGGAGCUcggcaUCCAAcGcGGCGCGc -3'
miRNA:   3'- -CGUGgCCUUGAag---AGGUU-CuCCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 5642 0.68 0.792219
Target:  5'- uGCAUCGGcaucAGCUUCUC--GGGGGUACc -3'
miRNA:   3'- -CGUGGCC----UUGAAGAGguUCUCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 37294 0.69 0.75234
Target:  5'- uGCGCCGGGucagCUCCAGGAugGGCuuGc -3'
miRNA:   3'- -CGUGGCCUugaaGAGGUUCU--CCGugC- -5'
18331 3' -53.1 NC_004681.1 + 8735 0.69 0.751315
Target:  5'- -aGCCGGGACcuacccgUUCUCCAgcgaAGAGuucGCGCGg -3'
miRNA:   3'- cgUGGCCUUG-------AAGAGGU----UCUC---CGUGC- -5'
18331 3' -53.1 NC_004681.1 + 24571 0.7 0.71054
Target:  5'- aGCGCUGGAAC-UCUCCc---GGCGCc -3'
miRNA:   3'- -CGUGGCCUUGaAGAGGuucuCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 17596 0.7 0.699874
Target:  5'- aGCcaacCCGGAAg-UCUCCGAGgccgcccaugccAGGCACGa -3'
miRNA:   3'- -CGu---GGCCUUgaAGAGGUUC------------UCCGUGC- -5'
18331 3' -53.1 NC_004681.1 + 4090 0.7 0.689143
Target:  5'- cGCGCUGGGucGCUUcCUCUcguGGGAGGCAa- -3'
miRNA:   3'- -CGUGGCCU--UGAA-GAGG---UUCUCCGUgc -5'
18331 3' -53.1 NC_004681.1 + 68537 0.71 0.645788
Target:  5'- -uGCCGGuGgUUCUCCccGAGGGGCAgGa -3'
miRNA:   3'- cgUGGCCuUgAAGAGG--UUCUCCGUgC- -5'
18331 3' -53.1 NC_004681.1 + 13888 0.73 0.548407
Target:  5'- aGCGCCGGGACgacagCUuGGGGGCGCc -3'
miRNA:   3'- -CGUGGCCUUGaaga-GGuUCUCCGUGc -5'
18331 3' -53.1 NC_004681.1 + 66146 0.74 0.496177
Target:  5'- gGUACggcaGGuGCUUCUCgAAGAGGCGCu -3'
miRNA:   3'- -CGUGg---CCuUGAAGAGgUUCUCCGUGc -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.