miRNA display CGI


Results 1 - 20 of 36 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
22240 5' -56.7 NC_005045.1 + 41490 0.69 0.360064
Target:  5'- aGGCcaCCGCUGUGAUcGCAGcAGCcacugcccuGGGCg -3'
miRNA:   3'- -CCGc-GGUGACGCUA-CGUCaUCG---------UCCG- -5'
22240 5' -56.7 NC_005045.1 + 26027 0.71 0.273445
Target:  5'- cGGUgGCCGCagcauUGCGAUGCuGGUGGCGcagcaccguGGCg -3'
miRNA:   3'- -CCG-CGGUG-----ACGCUACG-UCAUCGU---------CCG- -5'
22240 5' -56.7 NC_005045.1 + 8628 0.66 0.559665
Target:  5'- cGGgGCCu---CGGUGCuGGUGGCAGcGCc -3'
miRNA:   3'- -CCgCGGugacGCUACG-UCAUCGUC-CG- -5'
22240 5' -56.7 NC_005045.1 + 22663 0.66 0.553084
Target:  5'- cGCGUCACUGcCGAggaaguccgcaucacUGCGGaAG-AGGCa -3'
miRNA:   3'- cCGCGGUGAC-GCU---------------ACGUCaUCgUCCG- -5'
22240 5' -56.7 NC_005045.1 + 28562 0.66 0.547617
Target:  5'- cGGCGUCAagggUGCauccgucGAUGCGGUGGCccuGGa -3'
miRNA:   3'- -CCGCGGUg---ACG-------CUACGUCAUCGu--CCg -5'
22240 5' -56.7 NC_005045.1 + 6904 0.66 0.537822
Target:  5'- aGGC-CCugUGCGuugacgaccgGCAc-AGCAGGCa -3'
miRNA:   3'- -CCGcGGugACGCua--------CGUcaUCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 14924 0.67 0.474311
Target:  5'- cGUGCCGCaggugGCGaAUGUcgccgccccGGUGGUAGGUa -3'
miRNA:   3'- cCGCGGUGa----CGC-UACG---------UCAUCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 5662 0.68 0.434121
Target:  5'- cGGCGUCAcCUGUGA--CGGUGGUaAGGUg -3'
miRNA:   3'- -CCGCGGU-GACGCUacGUCAUCG-UCCG- -5'
22240 5' -56.7 NC_005045.1 + 4078 0.68 0.424385
Target:  5'- aGGCGCCugcuACUGCaucGCAGUGGCGccGCc -3'
miRNA:   3'- -CCGCGG----UGACGcuaCGUCAUCGUc-CG- -5'
22240 5' -56.7 NC_005045.1 + 18717 0.68 0.418606
Target:  5'- uGGCGCCGCcGCGAcccuggaacgacuggUGCGaUGGCGGa- -3'
miRNA:   3'- -CCGCGGUGaCGCU---------------ACGUcAUCGUCcg -5'
22240 5' -56.7 NC_005045.1 + 26807 0.68 0.40531
Target:  5'- -cCGCCGCUGg---GCAG-AGCGGGCc -3'
miRNA:   3'- ccGCGGUGACgcuaCGUCaUCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 38387 0.68 0.395978
Target:  5'- -cCGCCuCcGCGAggagaugcgGCAGgcGCAGGCg -3'
miRNA:   3'- ccGCGGuGaCGCUa--------CGUCauCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 11524 0.69 0.377734
Target:  5'- --gGCCuucCUGCGAcGCGGUGGcCGGGUc -3'
miRNA:   3'- ccgCGGu--GACGCUaCGUCAUC-GUCCG- -5'
22240 5' -56.7 NC_005045.1 + 14861 0.69 0.368826
Target:  5'- uGGCGCgACUGCcgccccUGCuGUAccggcugucccGCAGGCa -3'
miRNA:   3'- -CCGCGgUGACGcu----ACGuCAU-----------CGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 10111 0.68 0.424385
Target:  5'- cGGUGCgCAUgGCG-UGguGUcccgcAGCGGGCg -3'
miRNA:   3'- -CCGCG-GUGaCGCuACguCA-----UCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 7287 0.68 0.424385
Target:  5'- aGGUGCCAggucaUGCGGgcGCcGUAGgCGGGCc -3'
miRNA:   3'- -CCGCGGUg----ACGCUa-CGuCAUC-GUCCG- -5'
22240 5' -56.7 NC_005045.1 + 10188 0.68 0.442994
Target:  5'- cGGCGcCCGCUGCGGgacaccacgccaUGCGcaccgacGaUGGCAcGGCa -3'
miRNA:   3'- -CCGC-GGUGACGCU------------ACGU-------C-AUCGU-CCG- -5'
22240 5' -56.7 NC_005045.1 + 2920 0.68 0.443986
Target:  5'- aGCGCCaugucgGCUGCGuUGCAGcGGCccgccGGGUc -3'
miRNA:   3'- cCGCGG------UGACGCuACGUCaUCG-----UCCG- -5'
22240 5' -56.7 NC_005045.1 + 25060 0.68 0.443986
Target:  5'- cGGCGCCACUuggGCGGUGauCAGggucuuGCucgggaggaacaGGGCg -3'
miRNA:   3'- -CCGCGGUGA---CGCUAC--GUCau----CG------------UCCG- -5'
22240 5' -56.7 NC_005045.1 + 13350 0.68 0.443986
Target:  5'- aGCGCUcCUGUuggcgGAaGCuGUAGCAGGUg -3'
miRNA:   3'- cCGCGGuGACG-----CUaCGuCAUCGUCCG- -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.