miRNA display CGI


Results 1 - 18 of 18 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
11938 5' -56.6 NC_003278.1 + 21054 0.66 0.531319
Target:  5'- uGCCGCCGUCguggCGGuGCUGGccGGCg -3'
miRNA:   3'- cCGGUGGCAGaa--GUU-CGGCCacUCGa -5'
11938 5' -56.6 NC_003278.1 + 6796 0.66 0.52047
Target:  5'- gGGCU-UCGUCgggcaugUCGgccuGGUCGGUGAGCa -3'
miRNA:   3'- -CCGGuGGCAGa------AGU----UCGGCCACUCGa -5'
11938 5' -56.6 NC_003278.1 + 10380 0.66 0.499043
Target:  5'- cGGcCCAUCGaCcUCGauGGCCucGGUGAGCUg -3'
miRNA:   3'- -CC-GGUGGCaGaAGU--UCGG--CCACUCGA- -5'
11938 5' -56.6 NC_003278.1 + 29332 0.66 0.499043
Target:  5'- uGGCCACCaUCgaUUAccugggcuacAGCCGG-GAGCa -3'
miRNA:   3'- -CCGGUGGcAGa-AGU----------UCGGCCaCUCGa -5'
11938 5' -56.6 NC_003278.1 + 14465 0.66 0.499043
Target:  5'- aGGCCAgCGUCga-GAGC-GG-GAGCg -3'
miRNA:   3'- -CCGGUgGCAGaagUUCGgCCaCUCGa -5'
11938 5' -56.6 NC_003278.1 + 31726 0.66 0.497981
Target:  5'- cGGCCuCCGcgaCUUCGagcgccuGGCCGGUGucccgGGCa -3'
miRNA:   3'- -CCGGuGGCa--GAAGU-------UCGGCCAC-----UCGa -5'
11938 5' -56.6 NC_003278.1 + 14271 0.66 0.488477
Target:  5'- cGCCGCCGgcgUCAccgaugAGCauaugGGUGGGCUg -3'
miRNA:   3'- cCGGUGGCagaAGU------UCGg----CCACUCGA- -5'
11938 5' -56.6 NC_003278.1 + 12214 0.66 0.478017
Target:  5'- cGUCACCGg---CAAGgucaCGGUGAGCg -3'
miRNA:   3'- cCGGUGGCagaaGUUCg---GCCACUCGa -5'
11938 5' -56.6 NC_003278.1 + 15299 0.67 0.467669
Target:  5'- cGCUACCGUCgaacguugUCGAGCCGcUGAcGUc -3'
miRNA:   3'- cCGGUGGCAGa-------AGUUCGGCcACU-CGa -5'
11938 5' -56.6 NC_003278.1 + 6727 0.67 0.447326
Target:  5'- uGCCGCCgGUCUUCuguGCCu-UGAGCg -3'
miRNA:   3'- cCGGUGG-CAGAAGuu-CGGccACUCGa -5'
11938 5' -56.6 NC_003278.1 + 14201 0.67 0.437341
Target:  5'- cGCUGCCG-CgcCGAuGUCGGUGAGCa -3'
miRNA:   3'- cCGGUGGCaGaaGUU-CGGCCACUCGa -5'
11938 5' -56.6 NC_003278.1 + 22919 0.69 0.353641
Target:  5'- uGGCCACCGUga--AAGCCGGcUGccuGCUc -3'
miRNA:   3'- -CCGGUGGCAgaagUUCGGCC-ACu--CGA- -5'
11938 5' -56.6 NC_003278.1 + 2315 0.69 0.331662
Target:  5'- cGCCGCUGUCUauggaggggcuggcCAAGUCGGUGGGg- -3'
miRNA:   3'- cCGGUGGCAGAa-------------GUUCGGCCACUCga -5'
11938 5' -56.6 NC_003278.1 + 30364 0.69 0.32025
Target:  5'- gGGCCAUCGUCaUCAGGguCUGcUGAGCg -3'
miRNA:   3'- -CCGGUGGCAGaAGUUC--GGCcACUCGa -5'
11938 5' -56.6 NC_003278.1 + 9645 0.71 0.240818
Target:  5'- uGCCGCUGUUggUCAGGUCGGccUGGGCc -3'
miRNA:   3'- cCGGUGGCAGa-AGUUCGGCC--ACUCGa -5'
11938 5' -56.6 NC_003278.1 + 29644 0.74 0.168847
Target:  5'- aGGCCACCGg---CgAGGCCGGUGccGGCa -3'
miRNA:   3'- -CCGGUGGCagaaG-UUCGGCCAC--UCGa -5'
11938 5' -56.6 NC_003278.1 + 26839 0.76 0.120155
Target:  5'- cGCCACCGcCaUCAGGCgCGGUGAGg- -3'
miRNA:   3'- cCGGUGGCaGaAGUUCG-GCCACUCga -5'
11938 5' -56.6 NC_003278.1 + 29372 1.1 0.000344
Target:  5'- uGGCCACCGUCUUCAAGCCGGUGAGCUg -3'
miRNA:   3'- -CCGGUGGCAGAAGUUCGGCCACUCGA- -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.