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
28453 3' -56 NC_005946.1 + 84825 0.66 0.822645
Target:  5'- cCACAGGGGCaaggccaUGAGGgaccuGGUcaaGCAGugcGAGCg -3'
miRNA:   3'- cGUGUCCCCG-------ACUCU-----CCA---CGUC---UUCG- -5'
28453 3' -56 NC_005946.1 + 89519 0.66 0.805589
Target:  5'- gGCGCAGGGGCcaggucuuugGAGuGGcGUGCgucAGAGGa -3'
miRNA:   3'- -CGUGUCCCCGa---------CUC-UC-CACG---UCUUCg -5'
28453 3' -56 NC_005946.1 + 59755 0.67 0.786984
Target:  5'- -gACGGGGGUUG-GAGuUGCgccgauGGAAGCc -3'
miRNA:   3'- cgUGUCCCCGACuCUCcACG------UCUUCG- -5'
28453 3' -56 NC_005946.1 + 92060 0.67 0.777454
Target:  5'- aCGCGGGucuuacauuuGCcgGGGAGGUGCuuGGAGGCa -3'
miRNA:   3'- cGUGUCCc---------CGa-CUCUCCACG--UCUUCG- -5'
28453 3' -56 NC_005946.1 + 50973 0.67 0.757989
Target:  5'- cCugAGGaGGCUGAGGaugcugaGCAGGAGCc -3'
miRNA:   3'- cGugUCC-CCGACUCUcca----CGUCUUCG- -5'
28453 3' -56 NC_005946.1 + 23368 0.68 0.727927
Target:  5'- cGUcCGGGGagagGCUG-GAGGUGUcugcgGGAGGCa -3'
miRNA:   3'- -CGuGUCCC----CGACuCUCCACG-----UCUUCG- -5'
28453 3' -56 NC_005946.1 + 92239 0.68 0.727927
Target:  5'- -gACAGGaGGUgGGGAucGGcUGCGGAGGCc -3'
miRNA:   3'- cgUGUCC-CCGaCUCU--CC-ACGUCUUCG- -5'
28453 3' -56 NC_005946.1 + 103627 0.68 0.697073
Target:  5'- cGC-CGGGGGCU----GGUGCAGaAAGUg -3'
miRNA:   3'- -CGuGUCCCCGAcucuCCACGUC-UUCG- -5'
28453 3' -56 NC_005946.1 + 49028 0.69 0.676197
Target:  5'- -gACAGGGGCgaAGAGGa-CGGggGCc -3'
miRNA:   3'- cgUGUCCCCGacUCUCCacGUCuuCG- -5'
28453 3' -56 NC_005946.1 + 93151 0.7 0.612943
Target:  5'- uGCuCAGGGcGgaGGGAGGcagGCuGGAGCu -3'
miRNA:   3'- -CGuGUCCC-CgaCUCUCCa--CGuCUUCG- -5'
28453 3' -56 NC_005946.1 + 89743 0.7 0.612943
Target:  5'- aGCGCAGagaaGCgcaagGAGAGGaugagGCAGAAGCu -3'
miRNA:   3'- -CGUGUCcc--CGa----CUCUCCa----CGUCUUCG- -5'
28453 3' -56 NC_005946.1 + 10542 0.71 0.560561
Target:  5'- gGCcCAGGGGCUucGGGGgagGCAGGuuccccccgaGGCg -3'
miRNA:   3'- -CGuGUCCCCGAcuCUCCa--CGUCU----------UCG- -5'
28453 3' -56 NC_005946.1 + 29258 0.72 0.460466
Target:  5'- gGCcCAGGGGCccAGGGGaGCAGAGGg -3'
miRNA:   3'- -CGuGUCCCCGacUCUCCaCGUCUUCg -5'
28453 3' -56 NC_005946.1 + 34012 0.73 0.405127
Target:  5'- uGCGCGGGGGCccuUGccaGGAGG-GUAGAGGg -3'
miRNA:   3'- -CGUGUCCCCG---AC---UCUCCaCGUCUUCg -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.