miRNA display CGI


Results 1 - 20 of 32 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
1341 3' -51.6 NC_001335.1 + 16462 0.66 0.887658
Target:  5'- cGGUCAgCAUCGGGccgAGCuGCuGGAACa -3'
miRNA:   3'- aCUAGUaGUGGCCC---UUGuCGcUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 26581 0.66 0.863634
Target:  5'- gGAUCA--GCCGGGGACcgAGCc-GAACg -3'
miRNA:   3'- aCUAGUagUGGCCCUUG--UCGcuCUUG- -5'
1341 3' -51.6 NC_001335.1 + 42389 0.66 0.8551
Target:  5'- cUGGuUCAUCAgCCGGGugccgcGCAGCuuGAGGAUc -3'
miRNA:   3'- -ACU-AGUAGU-GGCCCu-----UGUCG--CUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 2538 0.66 0.8551
Target:  5'- aGAaaUCAgcCGCCGaGGGcguagcccgACGGCGGGAACu -3'
miRNA:   3'- aCU--AGUa-GUGGC-CCU---------UGUCGCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 44642 0.66 0.8551
Target:  5'- --uUCAgaggCuCCGGGAucACGGCGAGuACa -3'
miRNA:   3'- acuAGUa---GuGGCCCU--UGUCGCUCuUG- -5'
1341 3' -51.6 NC_001335.1 + 16914 0.66 0.863634
Target:  5'- -aGUCAgCGCCGGcauCAGCGAGAc- -3'
miRNA:   3'- acUAGUaGUGGCCcuuGUCGCUCUug -5'
1341 3' -51.6 NC_001335.1 + 10812 0.66 0.871094
Target:  5'- aGAgaaccCACCuGGGGuucgagggacuacGCAGCGAGGGCg -3'
miRNA:   3'- aCUagua-GUGG-CCCU-------------UGUCGCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 30056 0.66 0.887658
Target:  5'- cGAaguUCAUCuCCGaGGAcCAGgcCGAGAACg -3'
miRNA:   3'- aCU---AGUAGuGGC-CCUuGUC--GCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 7820 0.66 0.87992
Target:  5'- aGGUCGaccuggCACCGGuuccauuccuGCGGUGAGAGCc -3'
miRNA:   3'- aCUAGUa-----GUGGCCcu--------UGUCGCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 22827 0.66 0.87992
Target:  5'- --cUCGUCugCGGGGuuGGUGcGGACg -3'
miRNA:   3'- acuAGUAGugGCCCUugUCGCuCUUG- -5'
1341 3' -51.6 NC_001335.1 + 16663 0.67 0.846316
Target:  5'- -aGUUcgCGCCGGcguuGGACAGCGucaGGAACg -3'
miRNA:   3'- acUAGuaGUGGCC----CUUGUCGC---UCUUG- -5'
1341 3' -51.6 NC_001335.1 + 37491 0.67 0.837292
Target:  5'- aGAUCAUCAaCGG--ACAGCGAGcccagGACu -3'
miRNA:   3'- aCUAGUAGUgGCCcuUGUCGCUC-----UUG- -5'
1341 3' -51.6 NC_001335.1 + 12327 0.67 0.836377
Target:  5'- uUGA-CAUcCACCGGGAGgGGgcuccuuCGGGAGCc -3'
miRNA:   3'- -ACUaGUA-GUGGCCCUUgUC-------GCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 32333 0.68 0.768274
Target:  5'- aGGUCA--GCCaGGGGGCAGCGA-AGCc -3'
miRNA:   3'- aCUAGUagUGG-CCCUUGUCGCUcUUG- -5'
1341 3' -51.6 NC_001335.1 + 31051 0.68 0.788925
Target:  5'- gGAUC-UCGCCGaGAacuACGGCGuGAACc -3'
miRNA:   3'- aCUAGuAGUGGCcCU---UGUCGCuCUUG- -5'
1341 3' -51.6 NC_001335.1 + 32694 0.68 0.747024
Target:  5'- gGAUCcgCGCCGGccAACGGCGGcGGCg -3'
miRNA:   3'- aCUAGuaGUGGCCc-UUGUCGCUcUUG- -5'
1341 3' -51.6 NC_001335.1 + 22936 0.68 0.78994
Target:  5'- gGAccCAUaGCCGGGugugcgaaccucccuGCGGCGGGAACa -3'
miRNA:   3'- aCUa-GUAgUGGCCCu--------------UGUCGCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 37812 0.69 0.724177
Target:  5'- cGAUaCAUCgACUGGGAugGugcucacGUGAGAACg -3'
miRNA:   3'- aCUA-GUAG-UGGCCCUugU-------CGCUCUUG- -5'
1341 3' -51.6 NC_001335.1 + 3606 0.69 0.70313
Target:  5'- uUGAaguUCAgugucCACgcaGGGAACAGCGAGAc- -3'
miRNA:   3'- -ACU---AGUa----GUGg--CCCUUGUCGCUCUug -5'
1341 3' -51.6 NC_001335.1 + 7883 0.7 0.669387
Target:  5'- gUGAUCcgGUCACCGcGcuGCAGCG-GAGCg -3'
miRNA:   3'- -ACUAG--UAGUGGC-CcuUGUCGCuCUUG- -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.