miRNA display CGI


Results 1 - 20 of 27 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
12007 3' -56 NC_003278.1 + 16650 0.66 0.604301
Target:  5'- -aGAGCcuCGUCuCCGAGAgGUGGugGu -3'
miRNA:   3'- agCUUGc-GCAGuGGCUCUgCGCCugU- -5'
12007 3' -56 NC_003278.1 + 13277 0.66 0.593184
Target:  5'- aCGAugGCcagcagGUcCGCCGGGGCGCugccguugcccuGGGCGg -3'
miRNA:   3'- aGCUugCG------CA-GUGGCUCUGCG------------CCUGU- -5'
12007 3' -56 NC_003278.1 + 30402 0.66 0.593184
Target:  5'- cUCGGGCGCGUCGgCGuuGACgGCGuccuGGCGc -3'
miRNA:   3'- -AGCUUGCGCAGUgGCu-CUG-CGC----CUGU- -5'
12007 3' -56 NC_003278.1 + 20461 0.66 0.592074
Target:  5'- gCGcGGCGCGaucuucaaggacaUCGCCGGGcaguACGCGGugAc -3'
miRNA:   3'- aGC-UUGCGC-------------AGUGGCUC----UGCGCCugU- -5'
12007 3' -56 NC_003278.1 + 22739 0.66 0.592074
Target:  5'- gCGAACGCaGUUGgagcagcCCGaAGACGCuGGGCGa -3'
miRNA:   3'- aGCUUGCG-CAGU-------GGC-UCUGCG-CCUGU- -5'
12007 3' -56 NC_003278.1 + 13645 0.66 0.571062
Target:  5'- uUCGGugGCGUUGCgUGGGAgaaGCuGGGCAu -3'
miRNA:   3'- -AGCUugCGCAGUG-GCUCUg--CG-CCUGU- -5'
12007 3' -56 NC_003278.1 + 16 0.66 0.571062
Target:  5'- aCGAcuGCGCG-CGCCGGcgaaugagccGAUGCGGcCAg -3'
miRNA:   3'- aGCU--UGCGCaGUGGCU----------CUGCGCCuGU- -5'
12007 3' -56 NC_003278.1 + 8821 0.66 0.571062
Target:  5'- gCGAGCagucaGCGcCGCCGAGG-GCGGcCAg -3'
miRNA:   3'- aGCUUG-----CGCaGUGGCUCUgCGCCuGU- -5'
12007 3' -56 NC_003278.1 + 26864 0.66 0.560074
Target:  5'- gUCGAcCGCaucaUCGCCGAGGCGCuGcGCGa -3'
miRNA:   3'- -AGCUuGCGc---AGUGGCUCUGCGcC-UGU- -5'
12007 3' -56 NC_003278.1 + 22433 0.66 0.560074
Target:  5'- gUCGAcgGCGCugGUCAgguagcCCGucACGCGGGCGa -3'
miRNA:   3'- -AGCU--UGCG--CAGU------GGCucUGCGCCUGU- -5'
12007 3' -56 NC_003278.1 + 12469 0.66 0.560074
Target:  5'- cCGuauuCGCGUCGCau-GACGCGGGu- -3'
miRNA:   3'- aGCuu--GCGCAGUGgcuCUGCGCCUgu -5'
12007 3' -56 NC_003278.1 + 26396 0.67 0.538283
Target:  5'- gUCGAgauAUGUGUUugCGGGcugccuCGCGGGCu -3'
miRNA:   3'- -AGCU---UGCGCAGugGCUCu-----GCGCCUGu -5'
12007 3' -56 NC_003278.1 + 28674 0.67 0.538283
Target:  5'- gCGGugG-GUgACCGAGGCGCGcGCc -3'
miRNA:   3'- aGCUugCgCAgUGGCUCUGCGCcUGu -5'
12007 3' -56 NC_003278.1 + 12216 0.67 0.527496
Target:  5'- gUGugUGaUGUCGCCGAcGAUGCGGAUg -3'
miRNA:   3'- aGCuuGC-GCAGUGGCU-CUGCGCCUGu -5'
12007 3' -56 NC_003278.1 + 13189 0.68 0.48419
Target:  5'- cCGAG-GCaUCGCCGAcgcgaccgucggcGGCGCGGGCGu -3'
miRNA:   3'- aGCUUgCGcAGUGGCU-------------CUGCGCCUGU- -5'
12007 3' -56 NC_003278.1 + 5571 0.68 0.474909
Target:  5'- cUCGuAACGCugGUUGUCGAG-CGCGGACAc -3'
miRNA:   3'- -AGC-UUGCG--CAGUGGCUCuGCGCCUGU- -5'
12007 3' -56 NC_003278.1 + 32114 0.68 0.444641
Target:  5'- cCGGcCGCGgcUCGCC-AGACGCgGGACGu -3'
miRNA:   3'- aGCUuGCGC--AGUGGcUCUGCG-CCUGU- -5'
12007 3' -56 NC_003278.1 + 15780 0.69 0.415485
Target:  5'- aUCGGGCGCGUgugcgaaggCACCGcccAGAUcgcaGCGGACc -3'
miRNA:   3'- -AGCUUGCGCA---------GUGGC---UCUG----CGCCUGu -5'
12007 3' -56 NC_003278.1 + 26832 0.69 0.40603
Target:  5'- -gGGGCGuCGcCACCGccaucAGGCGCGGugAg -3'
miRNA:   3'- agCUUGC-GCaGUGGC-----UCUGCGCCugU- -5'
12007 3' -56 NC_003278.1 + 8673 0.69 0.396711
Target:  5'- uUCG-GCGcCGcCACCGAgGACGCGGuGCGu -3'
miRNA:   3'- -AGCuUGC-GCaGUGGCU-CUGCGCC-UGU- -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.