miRNA display CGI


Results 1 - 19 of 19 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
12964 3' -51.9 NC_003387.1 + 26118 0.66 0.867316
Target:  5'- aGCUucGCCGCc-GAG-GCGUUGUCAg- -3'
miRNA:   3'- -CGAu-CGGCGuaCUCaCGUAGCAGUag -5'
12964 3' -51.9 NC_003387.1 + 11680 0.66 0.867316
Target:  5'- --cGGCgauCGCGUGGGUGUcaauGUCGcCGUCg -3'
miRNA:   3'- cgaUCG---GCGUACUCACG----UAGCaGUAG- -5'
12964 3' -51.9 NC_003387.1 + 10774 0.66 0.867316
Target:  5'- cGCUGGCgGCc----UGCAUCGUCggGUCg -3'
miRNA:   3'- -CGAUCGgCGuacucACGUAGCAG--UAG- -5'
12964 3' -51.9 NC_003387.1 + 32182 0.66 0.84122
Target:  5'- aGCUGaCCGCc-GAGcUGCG-CGUCGUCa -3'
miRNA:   3'- -CGAUcGGCGuaCUC-ACGUaGCAGUAG- -5'
12964 3' -51.9 NC_003387.1 + 23889 0.66 0.832036
Target:  5'- gGCUGGCCGaCGUgcugcgcgccGAGggGCugaaCGUCGUCg -3'
miRNA:   3'- -CGAUCGGC-GUA----------CUCa-CGua--GCAGUAG- -5'
12964 3' -51.9 NC_003387.1 + 46128 0.67 0.803169
Target:  5'- cGgUGGCUcggGCGUGAgGUGCcgCgGUCGUCg -3'
miRNA:   3'- -CgAUCGG---CGUACU-CACGuaG-CAGUAG- -5'
12964 3' -51.9 NC_003387.1 + 5975 0.67 0.793146
Target:  5'- cGCUcgacccGGCCGguUGccgccGUGCAUCGUCcacUCg -3'
miRNA:   3'- -CGA------UCGGCguACu----CACGUAGCAGu--AG- -5'
12964 3' -51.9 NC_003387.1 + 18302 0.68 0.77257
Target:  5'- uGCUGcgcaggaauGCCGgc-GAGUGCGUCGUCGc- -3'
miRNA:   3'- -CGAU---------CGGCguaCUCACGUAGCAGUag -5'
12964 3' -51.9 NC_003387.1 + 20602 0.68 0.740569
Target:  5'- -gUGG-CGCAUGAGuUGCAUUG-CGUCa -3'
miRNA:   3'- cgAUCgGCGUACUC-ACGUAGCaGUAG- -5'
12964 3' -51.9 NC_003387.1 + 22954 0.68 0.740569
Target:  5'- aGCUGaCCGCGUGGG-GCGccccgGUCAUCg -3'
miRNA:   3'- -CGAUcGGCGUACUCaCGUag---CAGUAG- -5'
12964 3' -51.9 NC_003387.1 + 21205 0.69 0.673732
Target:  5'- uGCUGGCCGCGUGGaacagcGUGCGggCG-CAg- -3'
miRNA:   3'- -CGAUCGGCGUACU------CACGUa-GCaGUag -5'
12964 3' -51.9 NC_003387.1 + 31311 0.7 0.650982
Target:  5'- cGCcgGGCCGCcgGGG-GCGUUGgCGUCc -3'
miRNA:   3'- -CGa-UCGGCGuaCUCaCGUAGCaGUAG- -5'
12964 3' -51.9 NC_003387.1 + 14173 0.7 0.650982
Target:  5'- gGCcgGGCCGCgggcGUGAGgGCGUCGUgAUg -3'
miRNA:   3'- -CGa-UCGGCG----UACUCaCGUAGCAgUAg -5'
12964 3' -51.9 NC_003387.1 + 35446 0.7 0.639574
Target:  5'- uGUUAGCUGUcgGGGU-CGUCGUCGa- -3'
miRNA:   3'- -CGAUCGGCGuaCUCAcGUAGCAGUag -5'
12964 3' -51.9 NC_003387.1 + 11404 0.7 0.605348
Target:  5'- cGCUGGCCGCGaucgGccccgaGGUGCuGUCGUCGg- -3'
miRNA:   3'- -CGAUCGGCGUa---C------UCACG-UAGCAGUag -5'
12964 3' -51.9 NC_003387.1 + 21616 0.71 0.560103
Target:  5'- cCUGG-CGCucggGGGUGCGUCGUgAUCg -3'
miRNA:   3'- cGAUCgGCGua--CUCACGUAGCAgUAG- -5'
12964 3' -51.9 NC_003387.1 + 41752 0.75 0.356912
Target:  5'- gGCUGGCCGCgGUGuGGUGCGaccUCGaCGUCa -3'
miRNA:   3'- -CGAUCGGCG-UAC-UCACGU---AGCaGUAG- -5'
12964 3' -51.9 NC_003387.1 + 27080 0.81 0.164309
Target:  5'- aGCU-GCCGCAgcagUGGGUcgGCAUCGUCGUCc -3'
miRNA:   3'- -CGAuCGGCGU----ACUCA--CGUAGCAGUAG- -5'
12964 3' -51.9 NC_003387.1 + 37665 1.13 0.000947
Target:  5'- aGCUAGCCGCAUGAGUGCAUCGUCAUCg -3'
miRNA:   3'- -CGAUCGGCGUACUCACGUAGCAGUAG- -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.