miRNA display CGI


Results 1 - 19 of 19 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
15660 5' -54.3 NC_004065.1 + 118117 0.72 0.814012
Target:  5'- gUCUCUCGuCGCCGCGcggacgaGGUuGCggUAGa -3'
miRNA:   3'- -AGAGAGC-GCGGCGCa------CCAuCGuaAUC- -5'
15660 5' -54.3 NC_004065.1 + 159860 0.66 0.982574
Target:  5'- aUCUCUCuCGUCGUGUGGguacGUAcgUGGg -3'
miRNA:   3'- -AGAGAGcGCGGCGCACCau--CGUa-AUC- -5'
15660 5' -54.3 NC_004065.1 + 148059 0.66 0.982574
Target:  5'- uUCUUagugUCgGCGCCGgGaguaguggUGGUGGUAUUAGu -3'
miRNA:   3'- -AGAG----AG-CGCGGCgC--------ACCAUCGUAAUC- -5'
15660 5' -54.3 NC_004065.1 + 54670 0.66 0.980554
Target:  5'- --aUUCGUgaccaccaGUCGCGUGGUGGCAg--- -3'
miRNA:   3'- agaGAGCG--------CGGCGCACCAUCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 78475 0.66 0.978364
Target:  5'- gUCUC-CGCGCCGCGUca-AGCGc--- -3'
miRNA:   3'- -AGAGaGCGCGGCGCAccaUCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 1150 0.66 0.978364
Target:  5'- gCUCgugUGCGCCGCgGUGGUcccCAUUGu -3'
miRNA:   3'- aGAGa--GCGCGGCG-CACCAuc-GUAAUc -5'
15660 5' -54.3 NC_004065.1 + 107921 0.66 0.973446
Target:  5'- cCUCUCuCGCCGCGUGcGUguugaagagacAGCGg--- -3'
miRNA:   3'- aGAGAGcGCGGCGCAC-CA-----------UCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 62485 0.67 0.953922
Target:  5'- -----aGCgGCCGCGgcGGUAGCGUUGGu -3'
miRNA:   3'- agagagCG-CGGCGCa-CCAUCGUAAUC- -5'
15660 5' -54.3 NC_004065.1 + 19378 0.68 0.945687
Target:  5'- -gUCUCGCGCuCGgGccugGGUAGUAUgGGg -3'
miRNA:   3'- agAGAGCGCG-GCgCa---CCAUCGUAaUC- -5'
15660 5' -54.3 NC_004065.1 + 200778 0.68 0.941228
Target:  5'- cUCUCgUCGCGCgGCGgUGGcgGGCGa--- -3'
miRNA:   3'- -AGAG-AGCGCGgCGC-ACCa-UCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 3978 0.67 0.96127
Target:  5'- aCUaUCaGCGCUGCcuGUGGUGGCGUUcGGa -3'
miRNA:   3'- aGAgAG-CGCGGCG--CACCAUCGUAA-UC- -5'
15660 5' -54.3 NC_004065.1 + 203913 0.67 0.957705
Target:  5'- gCUCUgGCGCUgauauGCGUGGUGuggguGUGUUGGc -3'
miRNA:   3'- aGAGAgCGCGG-----CGCACCAU-----CGUAAUC- -5'
15660 5' -54.3 NC_004065.1 + 58332 0.68 0.931619
Target:  5'- -gUCUCGCGCaagGCGggcGGUGGCGg--- -3'
miRNA:   3'- agAGAGCGCGg--CGCa--CCAUCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 170950 0.69 0.921079
Target:  5'- ---aUCGCGCCGCG-GGcGGCGUg-- -3'
miRNA:   3'- agagAGCGCGGCGCaCCaUCGUAauc -5'
15660 5' -54.3 NC_004065.1 + 77710 0.69 0.90353
Target:  5'- -aUCUUGCGCCGCuUGGUguacGGCAc--- -3'
miRNA:   3'- agAGAGCGCGGCGcACCA----UCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 64857 0.72 0.796521
Target:  5'- gUCUCUagggcgggCGuCGCCGCGUGGUuaucguGGCAgUGGa -3'
miRNA:   3'- -AGAGA--------GC-GCGGCGCACCA------UCGUaAUC- -5'
15660 5' -54.3 NC_004065.1 + 77610 0.73 0.750412
Target:  5'- gCUCgUCGCGCUGCGU-GUAGCAc--- -3'
miRNA:   3'- aGAG-AGCGCGGCGCAcCAUCGUaauc -5'
15660 5' -54.3 NC_004065.1 + 654 1.1 0.00555
Target:  5'- gUCUCUCGCGCCGCGUGGUAGCAUUAGa -3'
miRNA:   3'- -AGAGAGCGCGGCGCACCAUCGUAAUC- -5'
15660 5' -54.3 NC_004065.1 + 45076 0.66 0.978364
Target:  5'- -gUC-CGUGUCGCgGUGGUGGCGc--- -3'
miRNA:   3'- agAGaGCGCGGCG-CACCAUCGUaauc -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.