miRNA display CGI


Results 1 - 20 of 39 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
12942 5' -56.3 NC_003387.1 + 261 0.71 0.337823
Target:  5'- uGCAGUGCccugGCUGCGCCgCG-CCGGucgAGUg -3'
miRNA:   3'- -CGUUACG----CGACGCGG-GCaGGCU---UCAg -5'
12942 5' -56.3 NC_003387.1 + 1010 0.69 0.445877
Target:  5'- -gGAUGCGCUGCgGCCuugCGUuuGcGGGUCa -3'
miRNA:   3'- cgUUACGCGACG-CGG---GCAggC-UUCAG- -5'
12942 5' -56.3 NC_003387.1 + 1272 0.68 0.495218
Target:  5'- uGCGGUGCgGCUGCGCggCGUUCGAccggcgcAGUUc -3'
miRNA:   3'- -CGUUACG-CGACGCGg-GCAGGCU-------UCAG- -5'
12942 5' -56.3 NC_003387.1 + 1766 0.7 0.380456
Target:  5'- gGCGGcgGCGCUgGCGCCCGagCUGAaagcccgcaaGGUCa -3'
miRNA:   3'- -CGUUa-CGCGA-CGCGGGCa-GGCU----------UCAG- -5'
12942 5' -56.3 NC_003387.1 + 1835 0.66 0.625438
Target:  5'- gGCGAaGgGCUGCgGCCUGUuuGAGaacggcGUCa -3'
miRNA:   3'- -CGUUaCgCGACG-CGGGCAggCUU------CAG- -5'
12942 5' -56.3 NC_003387.1 + 3254 0.66 0.647456
Target:  5'- aGCAAc-UGCUGCGCCUGgccgCCGAAa-- -3'
miRNA:   3'- -CGUUacGCGACGCGGGCa---GGCUUcag -5'
12942 5' -56.3 NC_003387.1 + 4432 0.66 0.614433
Target:  5'- gGCAagGCGUUcGCcgaGCCCGcgCCGAAGg- -3'
miRNA:   3'- -CGUuaCGCGA-CG---CGGGCa-GGCUUCag -5'
12942 5' -56.3 NC_003387.1 + 5138 0.67 0.549038
Target:  5'- cGCGAcgagggGCGCUcgGCGCCgGUCgGugcAGUCa -3'
miRNA:   3'- -CGUUa-----CGCGA--CGCGGgCAGgCu--UCAG- -5'
12942 5' -56.3 NC_003387.1 + 7802 0.69 0.436146
Target:  5'- uGCAGgccgaGCUGCaacGCCUGgcggCCGAGGUCg -3'
miRNA:   3'- -CGUUacg--CGACG---CGGGCa---GGCUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 8944 0.66 0.625438
Target:  5'- cGCGAUGCaCgGCGCCCGcaUGAAGg- -3'
miRNA:   3'- -CGUUACGcGaCGCGGGCagGCUUCag -5'
12942 5' -56.3 NC_003387.1 + 9537 0.71 0.362978
Target:  5'- aGCGGUGC-CUGCGCaagCCGccgCCGggGUg -3'
miRNA:   3'- -CGUUACGcGACGCG---GGCa--GGCuuCAg -5'
12942 5' -56.3 NC_003387.1 + 9671 0.71 0.362119
Target:  5'- gGCGGUGCggggucaGCU-CGCCCGUCUuGAGGUUg -3'
miRNA:   3'- -CGUUACG-------CGAcGCGGGCAGG-CUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 10931 0.68 0.534056
Target:  5'- gGC-GUGCGCcaggucgcggcacGCGCCCGgcuugacgUCGAGGUCg -3'
miRNA:   3'- -CGuUACGCGa------------CGCGGGCa-------GGCUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 11418 0.72 0.306295
Target:  5'- gGCGAUGagGUUGCGCUCGU-CGAGGUUu -3'
miRNA:   3'- -CGUUACg-CGACGCGGGCAgGCUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 13141 0.69 0.464694
Target:  5'- cGCuGGUGCGCaGCGCgaacaggCCGUC-GAGGUCa -3'
miRNA:   3'- -CG-UUACGCGaCGCG-------GGCAGgCUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 14936 0.67 0.582639
Target:  5'- cGCGG-GUGCUGCGCCCaGgcgcgcuugagcacgCCuuGAGGUCg -3'
miRNA:   3'- -CGUUaCGCGACGCGGG-Ca--------------GG--CUUCAG- -5'
12942 5' -56.3 NC_003387.1 + 18525 0.67 0.559819
Target:  5'- cGCGAcgugGCGCUGUgGCuuGUgCGcGAGUCg -3'
miRNA:   3'- -CGUUa---CGCGACG-CGggCAgGC-UUCAG- -5'
12942 5' -56.3 NC_003387.1 + 20516 0.66 0.646356
Target:  5'- aGCGcgGCGUcGCGCUCGUCggugaCGAcgcgcagcucggcGGUCa -3'
miRNA:   3'- -CGUuaCGCGaCGCGGGCAG-----GCU-------------UCAG- -5'
12942 5' -56.3 NC_003387.1 + 21706 0.66 0.625438
Target:  5'- gGCGA-GCGCg--GCCCGcgCCGAccuGGUCg -3'
miRNA:   3'- -CGUUaCGCGacgCGGGCa-GGCU---UCAG- -5'
12942 5' -56.3 NC_003387.1 + 22182 0.66 0.603444
Target:  5'- gGCGguccAUGuCGggGCGCCCGUugcacuugUCGggGUCg -3'
miRNA:   3'- -CGU----UAC-GCgaCGCGGGCA--------GGCuuCAG- -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.