miRNA display CGI


Results 1 - 20 of 54 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
19046 3' -56.8 NC_004684.1 + 528 0.67 0.562354
Target:  5'- gGCGCUGAcgugcugGCCaGCGcGGUCgAGGCc- -3'
miRNA:   3'- -CGCGACU-------UGGcCGCaCCAGgUUCGuu -5'
19046 3' -56.8 NC_004684.1 + 2102 0.69 0.460246
Target:  5'- gGCGCaGcacuacGGCgCGGCGUGGUCgGAGCu- -3'
miRNA:   3'- -CGCGaC------UUG-GCCGCACCAGgUUCGuu -5'
19046 3' -56.8 NC_004684.1 + 5934 0.68 0.552753
Target:  5'- cGCGCUGGccACCGG-GcGGUCCAaccuGGCc- -3'
miRNA:   3'- -CGCGACU--UGGCCgCaCCAGGU----UCGuu -5'
19046 3' -56.8 NC_004684.1 + 7574 0.72 0.326821
Target:  5'- gGCGCUGGugCGGC-UGGUgCGcGGCAAc -3'
miRNA:   3'- -CGCGACUugGCCGcACCAgGU-UCGUU- -5'
19046 3' -56.8 NC_004684.1 + 8184 0.68 0.525315
Target:  5'- cGCGCUGGGCCagGcgcagcugaucaagcGCGUGGU-CGAGCAGc -3'
miRNA:   3'- -CGCGACUUGG--C---------------CGCACCAgGUUCGUU- -5'
19046 3' -56.8 NC_004684.1 + 9467 0.67 0.595728
Target:  5'- gGCGCUgGAGCUGGCG-GG--CAAGCGc -3'
miRNA:   3'- -CGCGA-CUUGGCCGCaCCagGUUCGUu -5'
19046 3' -56.8 NC_004684.1 + 9886 0.7 0.440792
Target:  5'- cGCGCagGAGCaGGCcgccgacgaGUGGUCCGGGCu- -3'
miRNA:   3'- -CGCGa-CUUGgCCG---------CACCAGGUUCGuu -5'
19046 3' -56.8 NC_004684.1 + 11713 0.73 0.289195
Target:  5'- aCGCUGAcGCCugcugGGCGuUGGUCCGGGUAGg -3'
miRNA:   3'- cGCGACU-UGG-----CCGC-ACCAGGUUCGUU- -5'
19046 3' -56.8 NC_004684.1 + 13273 0.66 0.65005
Target:  5'- cGCGCUGGuggccGCCGGUGgcUGGugcgcgccgUCgGAGCAGc -3'
miRNA:   3'- -CGCGACU-----UGGCCGC--ACC---------AGgUUCGUU- -5'
19046 3' -56.8 NC_004684.1 + 14955 0.66 0.63918
Target:  5'- uGCGCcGAGCCGaGCcaGGUCCGcuuGCGu -3'
miRNA:   3'- -CGCGaCUUGGC-CGcaCCAGGUu--CGUu -5'
19046 3' -56.8 NC_004684.1 + 16072 0.7 0.440792
Target:  5'- gGCGCUGAugGCCGGUGaccgGGaguUCCuGGCAc -3'
miRNA:   3'- -CGCGACU--UGGCCGCa---CC---AGGuUCGUu -5'
19046 3' -56.8 NC_004684.1 + 16875 0.69 0.480146
Target:  5'- aGUGuCUGcGCCGGUGUGGUgcagaguuUCAAGCGc -3'
miRNA:   3'- -CGC-GACuUGGCCGCACCA--------GGUUCGUu -5'
19046 3' -56.8 NC_004684.1 + 17242 0.68 0.521138
Target:  5'- gGUGCUGAcgaaaugacGgCGGCGcUGGUCCu-GCAAc -3'
miRNA:   3'- -CGCGACU---------UgGCCGC-ACCAGGuuCGUU- -5'
19046 3' -56.8 NC_004684.1 + 19017 0.66 0.681448
Target:  5'- uCGCUGGucuccggguuggcACCGGCGg---CCGGGCAGg -3'
miRNA:   3'- cGCGACU-------------UGGCCGCaccaGGUUCGUU- -5'
19046 3' -56.8 NC_004684.1 + 19552 0.66 0.682525
Target:  5'- cGCGCUacguGCCgucaGGCG-GGUCCGacgAGCAGg -3'
miRNA:   3'- -CGCGAcu--UGG----CCGCaCCAGGU---UCGUU- -5'
19046 3' -56.8 NC_004684.1 + 19674 0.67 0.573073
Target:  5'- cGCGCUcuACCGGCGcggcggcaaggccUGG-CCGAGCc- -3'
miRNA:   3'- -CGCGAcuUGGCCGC-------------ACCaGGUUCGuu -5'
19046 3' -56.8 NC_004684.1 + 20846 0.68 0.55169
Target:  5'- aGCGC---ACCGGCGUcguucuuccgaccGGUgCAGGCAAg -3'
miRNA:   3'- -CGCGacuUGGCCGCA-------------CCAgGUUCGUU- -5'
19046 3' -56.8 NC_004684.1 + 21307 0.67 0.573073
Target:  5'- uGCGCUGGGCCaucaagcacgGGUuccUGGUCCAgccgcgcGGCAAg -3'
miRNA:   3'- -CGCGACUUGG----------CCGc--ACCAGGU-------UCGUU- -5'
19046 3' -56.8 NC_004684.1 + 25202 0.69 0.470143
Target:  5'- gGCGCUGGcACCGG-GUGGcUUCAccGGCAc -3'
miRNA:   3'- -CGCGACU-UGGCCgCACC-AGGU--UCGUu -5'
19046 3' -56.8 NC_004684.1 + 26736 0.66 0.682525
Target:  5'- aGCGC--GACUGGCGgGG-CCAGGCc- -3'
miRNA:   3'- -CGCGacUUGGCCGCaCCaGGUUCGuu -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.