miRNA display CGI


Results 1 - 14 of 14 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
1355 5' -59.4 NC_001335.1 + 1249 0.66 0.452986
Target:  5'- cACCGGUGGcGGCggaaGUggagcCGGCGGCGGUg -3'
miRNA:   3'- -UGGUCGCC-UCGa---CGau---GCCGCUGCUA- -5'
1355 5' -59.4 NC_001335.1 + 46475 0.66 0.443271
Target:  5'- gGCCGGCGGGGgaGCguuggugcucUACcgaGGCGACa-- -3'
miRNA:   3'- -UGGUCGCCUCgaCG----------AUG---CCGCUGcua -5'
1355 5' -59.4 NC_001335.1 + 49418 0.67 0.405626
Target:  5'- -aCAGCGcguGGGaCUgccaacGCUGCGGCGGCGAg -3'
miRNA:   3'- ugGUCGC---CUC-GA------CGAUGCCGCUGCUa -5'
1355 5' -59.4 NC_001335.1 + 28499 0.68 0.358123
Target:  5'- aACCgcaucggaGGUGGAGUgagcauugccucgGCUAUGGCGAUGAg -3'
miRNA:   3'- -UGG--------UCGCCUCGa------------CGAUGCCGCUGCUa -5'
1355 5' -59.4 NC_001335.1 + 48326 0.68 0.328688
Target:  5'- gGCCAGCaGGAcgugGCcGCUGCGGUgGAUGAc -3'
miRNA:   3'- -UGGUCG-CCU----CGaCGAUGCCG-CUGCUa -5'
1355 5' -59.4 NC_001335.1 + 51575 0.68 0.32396
Target:  5'- cACCGGCacgauccucucGGAuccgccuaccgccuuGCUGCUGCGGUGACa-- -3'
miRNA:   3'- -UGGUCG-----------CCU---------------CGACGAUGCCGCUGcua -5'
1355 5' -59.4 NC_001335.1 + 22593 0.69 0.305554
Target:  5'- cGCUGGCGGcGUgGCcgGCGGUGACGAc -3'
miRNA:   3'- -UGGUCGCCuCGaCGa-UGCCGCUGCUa -5'
1355 5' -59.4 NC_001335.1 + 32700 0.69 0.283689
Target:  5'- uCCGGUGGAuccGCgccgGCcaacgGCGGCGGCGGUg -3'
miRNA:   3'- uGGUCGCCU---CGa---CGa----UGCCGCUGCUA- -5'
1355 5' -59.4 NC_001335.1 + 47765 0.7 0.269812
Target:  5'- aGCCAgcaaggaucGCGGcGUUGCUGCGGUGAUGc- -3'
miRNA:   3'- -UGGU---------CGCCuCGACGAUGCCGCUGCua -5'
1355 5' -59.4 NC_001335.1 + 22551 0.7 0.263081
Target:  5'- uGCCAucGCGGAGCUGCaGCGuCGACu-- -3'
miRNA:   3'- -UGGU--CGCCUCGACGaUGCcGCUGcua -5'
1355 5' -59.4 NC_001335.1 + 4083 0.7 0.250029
Target:  5'- gACCGGCGaGGCaGC--CGGCGGCGAUg -3'
miRNA:   3'- -UGGUCGCcUCGaCGauGCCGCUGCUA- -5'
1355 5' -59.4 NC_001335.1 + 24066 0.7 0.250029
Target:  5'- aGCUGGCGGgaacGGCaaUGCUccugGCGGCGGCGGg -3'
miRNA:   3'- -UGGUCGCC----UCG--ACGA----UGCCGCUGCUa -5'
1355 5' -59.4 NC_001335.1 + 25613 0.72 0.177806
Target:  5'- gACCAGCGGAGCg-----GGCGACGGg -3'
miRNA:   3'- -UGGUCGCCUCGacgaugCCGCUGCUa -5'
1355 5' -59.4 NC_001335.1 + 16255 1.06 0.000556
Target:  5'- gACCAGCGGAGCUGCUACGGCGACGAUg -3'
miRNA:   3'- -UGGUCGCCUCGACGAUGCCGCUGCUA- -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.