miRNA display CGI


Results 1 - 20 of 30 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
23972 3' -59.9 NC_005262.1 + 17619 0.66 0.501307
Target:  5'- gGAGCgCCAGcagcGCGAGcUCGCCGaGCa- -3'
miRNA:   3'- -UUCG-GGUCa---CGCUCaAGCGGCgCGcu -5'
23972 3' -59.9 NC_005262.1 + 57988 0.66 0.501307
Target:  5'- -uGUCCuu--CGGGUUCGuuGCGCGAu -3'
miRNA:   3'- uuCGGGucacGCUCAAGCggCGCGCU- -5'
23972 3' -59.9 NC_005262.1 + 35962 0.66 0.501307
Target:  5'- uGAGCCgauaGGUGCGcg--CGUCGCGCGc -3'
miRNA:   3'- -UUCGGg---UCACGCucaaGCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 28253 0.66 0.501307
Target:  5'- cGGCCgCcGcGCGcAGUUgCGCCGCGCGc -3'
miRNA:   3'- uUCGG-GuCaCGC-UCAA-GCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 17047 0.66 0.491269
Target:  5'- cAGCUCc--GCGAGcUCGUCGCGCGc -3'
miRNA:   3'- uUCGGGucaCGCUCaAGCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 11562 0.66 0.491269
Target:  5'- cGGCCCAuGUGCucGcgCGCgaGCGCGGu -3'
miRNA:   3'- uUCGGGU-CACGcuCaaGCGg-CGCGCU- -5'
23972 3' -59.9 NC_005262.1 + 12119 0.66 0.481326
Target:  5'- -cGCCguGcgcGCGAGcagaUCGCCGCGCu- -3'
miRNA:   3'- uuCGGguCa--CGCUCa---AGCGGCGCGcu -5'
23972 3' -59.9 NC_005262.1 + 43065 0.66 0.481326
Target:  5'- cGGCCCGGcGCG-GUuuucagccagUCGuuGCGCGu -3'
miRNA:   3'- uUCGGGUCaCGCuCA----------AGCggCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 46536 0.66 0.471482
Target:  5'- cAGCCCAGcGCGGcgccGgcCGCCGCucccGCGAc -3'
miRNA:   3'- uUCGGGUCaCGCU----CaaGCGGCG----CGCU- -5'
23972 3' -59.9 NC_005262.1 + 4648 0.66 0.471482
Target:  5'- -cGCCgCuGGcGCGAGaugCGCCGCGCGc -3'
miRNA:   3'- uuCGG-G-UCaCGCUCaa-GCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 54418 0.66 0.471482
Target:  5'- cAAGCUCGcGgagGCGcAGgcCGCCGCGCGc -3'
miRNA:   3'- -UUCGGGU-Ca--CGC-UCaaGCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 50987 0.67 0.41471
Target:  5'- -uGCCCugcgcguucaGGUGauugaCGAGcgCGCCGUGCGAu -3'
miRNA:   3'- uuCGGG----------UCAC-----GCUCaaGCGGCGCGCU- -5'
23972 3' -59.9 NC_005262.1 + 56957 0.67 0.405662
Target:  5'- -cGCgCGG-GCGAGUUCGCgGgCGUGGu -3'
miRNA:   3'- uuCGgGUCaCGCUCAAGCGgC-GCGCU- -5'
23972 3' -59.9 NC_005262.1 + 11494 0.67 0.405662
Target:  5'- cGGCCCGGcGCGGcgcggcuucggcGUggaGCCGCGCGc -3'
miRNA:   3'- uUCGGGUCaCGCU------------CAag-CGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 55006 0.67 0.402078
Target:  5'- -cGCCCggcagcgucaGGUGCGAGccgucgaacuggCGCgGCGCGAu -3'
miRNA:   3'- uuCGGG----------UCACGCUCaa----------GCGgCGCGCU- -5'
23972 3' -59.9 NC_005262.1 + 49821 0.67 0.396739
Target:  5'- cGGCgUCGGUGCGgcuucggccgccGGUUCGCCGCcCGGc -3'
miRNA:   3'- uUCG-GGUCACGC------------UCAAGCGGCGcGCU- -5'
23972 3' -59.9 NC_005262.1 + 49593 0.68 0.387943
Target:  5'- cAGGCCCucgGCGAucgCGCUGCGCGc -3'
miRNA:   3'- -UUCGGGucaCGCUcaaGCGGCGCGCu -5'
23972 3' -59.9 NC_005262.1 + 59212 0.68 0.387943
Target:  5'- cGGCCCg--GCcGGUUCGCCucgGCGCGGu -3'
miRNA:   3'- uUCGGGucaCGcUCAAGCGG---CGCGCU- -5'
23972 3' -59.9 NC_005262.1 + 2933 0.68 0.345929
Target:  5'- cAAGCUC-GUGCGGGcaCGCCaGCGCGc -3'
miRNA:   3'- -UUCGGGuCACGCUCaaGCGG-CGCGCu -5'
23972 3' -59.9 NC_005262.1 + 20677 0.69 0.337927
Target:  5'- cAGCCC--UGCG-GcgCGCCGCGCGc -3'
miRNA:   3'- uUCGGGucACGCuCaaGCGGCGCGCu -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.