miRNA display CGI


Results 1 - 13 of 13 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
20660 3' -59.7 NC_004688.1 + 45381 0.66 0.661172
Target:  5'- aCGUAGAUCUCuucauaauucagGCCgUGCCAcGGGUGGc -3'
miRNA:   3'- aGCAUCUGGAG------------UGG-GCGGU-CCCGCUu -5'
20660 3' -59.7 NC_004688.1 + 9402 0.66 0.661172
Target:  5'- gUCGUGGAgUUCguGCCgGCCGGGGagguCGAu -3'
miRNA:   3'- -AGCAUCUgGAG--UGGgCGGUCCC----GCUu -5'
20660 3' -59.7 NC_004688.1 + 70459 0.66 0.650922
Target:  5'- aUCGauGAUgaCGCCCGCCcGGGUGAu -3'
miRNA:   3'- -AGCauCUGgaGUGGGCGGuCCCGCUu -5'
20660 3' -59.7 NC_004688.1 + 62666 0.67 0.620115
Target:  5'- aCGUGcuggauGGCCgcCACCCGCCcGGGCa-- -3'
miRNA:   3'- aGCAU------CUGGa-GUGGGCGGuCCCGcuu -5'
20660 3' -59.7 NC_004688.1 + 71201 0.67 0.599609
Target:  5'- ---cGGGCCuUCGcCCCGCC-GGGCGGu -3'
miRNA:   3'- agcaUCUGG-AGU-GGGCGGuCCCGCUu -5'
20660 3' -59.7 NC_004688.1 + 83909 0.69 0.49958
Target:  5'- ----uGAUCUC-CCCGCCGGGGCu-- -3'
miRNA:   3'- agcauCUGGAGuGGGCGGUCCCGcuu -5'
20660 3' -59.7 NC_004688.1 + 80952 0.69 0.480404
Target:  5'- -aGUGGugCgauauucCACCCGuCCGGGGCGu- -3'
miRNA:   3'- agCAUCugGa------GUGGGC-GGUCCCGCuu -5'
20660 3' -59.7 NC_004688.1 + 57598 0.69 0.452336
Target:  5'- cUCGaAGACUUCGCCCGUgAGGcGCa-- -3'
miRNA:   3'- -AGCaUCUGGAGUGGGCGgUCC-CGcuu -5'
20660 3' -59.7 NC_004688.1 + 93813 0.7 0.44318
Target:  5'- cUUGgcGACCUCgccgccguuuggGCCCGaCCAGGGCu-- -3'
miRNA:   3'- -AGCauCUGGAG------------UGGGC-GGUCCCGcuu -5'
20660 3' -59.7 NC_004688.1 + 85108 0.7 0.434129
Target:  5'- cCGacGACCUCGuucgcCCCGCCGGGGCc-- -3'
miRNA:   3'- aGCauCUGGAGU-----GGGCGGUCCCGcuu -5'
20660 3' -59.7 NC_004688.1 + 17821 0.7 0.425187
Target:  5'- gUGUAGAUCacuUCACCCuCCAGGGCu-- -3'
miRNA:   3'- aGCAUCUGG---AGUGGGcGGUCCCGcuu -5'
20660 3' -59.7 NC_004688.1 + 73254 0.72 0.326288
Target:  5'- cUCGgcgguGACCUCccACCCGCCAaccacgcGGGCGGc -3'
miRNA:   3'- -AGCau---CUGGAG--UGGGCGGU-------CCCGCUu -5'
20660 3' -59.7 NC_004688.1 + 68323 0.72 0.305269
Target:  5'- cUUGUGGACCUCGCCCucGCCcucGGcGCGGu -3'
miRNA:   3'- -AGCAUCUGGAGUGGG--CGGu--CC-CGCUu -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.