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
22249 3' -58.1 NC_005045.1 + 11775 1.11 0.000249
Target:  5'- cGGGCCGGACAGGUACUCGCUCAGCAGg -3'
miRNA:   3'- -CCCGGCCUGUCCAUGAGCGAGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 15978 0.8 0.059396
Target:  5'- aGGCCGGACgaAGGU-CUCgGCUUAGCAGg -3'
miRNA:   3'- cCCGGCCUG--UCCAuGAG-CGAGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 4883 0.76 0.114699
Target:  5'- aGGCUGGACAGG----CGCUCGGCGGu -3'
miRNA:   3'- cCCGGCCUGUCCaugaGCGAGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 23467 0.73 0.173706
Target:  5'- gGGGCCGGcugaGCGGGUGCUUGCggaaCAaCGGg -3'
miRNA:   3'- -CCCGGCC----UGUCCAUGAGCGa---GUcGUC- -5'
22249 3' -58.1 NC_005045.1 + 16962 0.71 0.258318
Target:  5'- aGGGCCaccaGCAGGUGCaggUCGUcCAGCGGg -3'
miRNA:   3'- -CCCGGcc--UGUCCAUG---AGCGaGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 16072 0.7 0.285958
Target:  5'- uGGGCCGaGCAGGgcaaacucUGCcCGCUCuGCGGc -3'
miRNA:   3'- -CCCGGCcUGUCC--------AUGaGCGAGuCGUC- -5'
22249 3' -58.1 NC_005045.1 + 18592 0.7 0.30063
Target:  5'- -uGCCGaGgcGCAGGUAgUCGCcgUCGGCAGg -3'
miRNA:   3'- ccCGGC-C--UGUCCAUgAGCG--AGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 38901 0.69 0.348099
Target:  5'- cGGGCCucggGGcGCAGGUA--CGC-CAGCAGg -3'
miRNA:   3'- -CCCGG----CC-UGUCCAUgaGCGaGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 11574 0.68 0.365069
Target:  5'- aGGaaGGcCAGGUACUCGUcccggUAGCGGg -3'
miRNA:   3'- cCCggCCuGUCCAUGAGCGa----GUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 32624 0.68 0.373765
Target:  5'- aGGGCCugGGGCAGcGUACcgCGUUCcgugugguGCAGg -3'
miRNA:   3'- -CCCGG--CCUGUC-CAUGa-GCGAGu-------CGUC- -5'
22249 3' -58.1 NC_005045.1 + 34474 0.68 0.382601
Target:  5'- gGGGCCGaGCuGGUGCUCaCgCGGCAc -3'
miRNA:   3'- -CCCGGCcUGuCCAUGAGcGaGUCGUc -5'
22249 3' -58.1 NC_005045.1 + 5135 0.68 0.391575
Target:  5'- aGGGCCGGGCcuauuacgugcGGGccuUACUCGCccUgGGCGa -3'
miRNA:   3'- -CCCGGCCUG-----------UCC---AUGAGCG--AgUCGUc -5'
22249 3' -58.1 NC_005045.1 + 41598 0.68 0.391575
Target:  5'- cGGGuCCGGugGGGUAgcgccgccCUCGCcgCccagGGCAGu -3'
miRNA:   3'- -CCC-GGCCugUCCAU--------GAGCGa-G----UCGUC- -5'
22249 3' -58.1 NC_005045.1 + 22478 0.67 0.428808
Target:  5'- -aGCuCGuACAGGccgaguuuCUCGCUCAGCAGg -3'
miRNA:   3'- ccCG-GCcUGUCCau------GAGCGAGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 30238 0.67 0.438437
Target:  5'- aGGCCGaGCAGGgcgccgugGCcugggCGCUCaAGCAGa -3'
miRNA:   3'- cCCGGCcUGUCCa-------UGa----GCGAG-UCGUC- -5'
22249 3' -58.1 NC_005045.1 + 26563 0.67 0.44819
Target:  5'- gGGGCgugcaGGACGGGUACaUCGCauuccgUGGCGa -3'
miRNA:   3'- -CCCGg----CCUGUCCAUG-AGCGa-----GUCGUc -5'
22249 3' -58.1 NC_005045.1 + 16759 0.67 0.44819
Target:  5'- aGGGCUGGGu--GUGgUCGCUCuggaAGCAGa -3'
miRNA:   3'- -CCCGGCCUgucCAUgAGCGAG----UCGUC- -5'
22249 3' -58.1 NC_005045.1 + 25050 0.67 0.44819
Target:  5'- uGGGCgGuGAUcaGGGU-CUUGCUCGGgAGg -3'
miRNA:   3'- -CCCGgC-CUG--UCCAuGAGCGAGUCgUC- -5'
22249 3' -58.1 NC_005045.1 + 14035 0.66 0.457069
Target:  5'- aGGCCGGAgUAGGgaagGgUCGUcaggcguUCGGCAGc -3'
miRNA:   3'- cCCGGCCU-GUCCa---UgAGCG-------AGUCGUC- -5'
22249 3' -58.1 NC_005045.1 + 6906 0.66 0.467044
Target:  5'- aGGCCGGACAGGUcgaaggcAC-CGagggcCAGCAc -3'
miRNA:   3'- cCCGGCCUGUCCA-------UGaGCga---GUCGUc -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.