miRNA display CGI


Results 1 - 20 of 64 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
16219 3' -56 NC_004065.1 + 77230 0.66 0.975059
Target:  5'- cCUCGUCGU----CGGaGGUCaGUCGACGu -3'
miRNA:   3'- -GAGCAGCAcgcuGCC-CCAG-CAGUUGC- -5'
16219 3' -56 NC_004065.1 + 143113 0.66 0.975059
Target:  5'- uUCG-CG-GCGcCGGgaaaGGUCGUCGACa -3'
miRNA:   3'- gAGCaGCaCGCuGCC----CCAGCAGUUGc -5'
16219 3' -56 NC_004065.1 + 19770 0.66 0.975059
Target:  5'- gUCGUCGauCGAUGGGcaguucgaGUCGUCcGCGg -3'
miRNA:   3'- gAGCAGCacGCUGCCC--------CAGCAGuUGC- -5'
16219 3' -56 NC_004065.1 + 187909 0.66 0.972528
Target:  5'- -cCGUCGUGCGccaaaACGGucacGUaCGUCGGCGc -3'
miRNA:   3'- gaGCAGCACGC-----UGCCc---CA-GCAGUUGC- -5'
16219 3' -56 NC_004065.1 + 78447 0.66 0.972265
Target:  5'- aCUCGUCGaugacgaugauguUGCuGCGGcagaGGUCGUCggUGu -3'
miRNA:   3'- -GAGCAGC-------------ACGcUGCC----CCAGCAGuuGC- -5'
16219 3' -56 NC_004065.1 + 196228 0.66 0.969815
Target:  5'- ---cUCGUGCGACGGGaUCGcCAAg- -3'
miRNA:   3'- gagcAGCACGCUGCCCcAGCaGUUgc -5'
16219 3' -56 NC_004065.1 + 18516 0.66 0.969815
Target:  5'- gUCGUCGgacuccugGUGcACGGGaUCGUCAcCGg -3'
miRNA:   3'- gAGCAGCa-------CGC-UGCCCcAGCAGUuGC- -5'
16219 3' -56 NC_004065.1 + 62355 0.66 0.969815
Target:  5'- gUCGUCGguuuuCGACGGcGGUgG-CGGCGg -3'
miRNA:   3'- gAGCAGCac---GCUGCC-CCAgCaGUUGC- -5'
16219 3' -56 NC_004065.1 + 55419 0.66 0.969534
Target:  5'- uCUCGUCGUggugGUGGCgugcuuccuagcgGGGGUCGcCGccGCGa -3'
miRNA:   3'- -GAGCAGCA----CGCUG-------------CCCCAGCaGU--UGC- -5'
16219 3' -56 NC_004065.1 + 190294 0.66 0.966917
Target:  5'- uUCGUCG-GCGAUccGGUCG-CGGCGu -3'
miRNA:   3'- gAGCAGCaCGCUGccCCAGCaGUUGC- -5'
16219 3' -56 NC_004065.1 + 45092 0.66 0.966917
Target:  5'- uUCGaCGUGCagcuCGGGGUCcucCAGCGg -3'
miRNA:   3'- gAGCaGCACGcu--GCCCCAGca-GUUGC- -5'
16219 3' -56 NC_004065.1 + 27203 0.66 0.966917
Target:  5'- -gCGUCaugGCGGCGGucguGGUCGgCAGCGu -3'
miRNA:   3'- gaGCAGca-CGCUGCC----CCAGCaGUUGC- -5'
16219 3' -56 NC_004065.1 + 211663 0.66 0.963827
Target:  5'- uUCGuUCGUGCGGaucguucgaGGGGgagcCGUCgAACGa -3'
miRNA:   3'- gAGC-AGCACGCUg--------CCCCa---GCAG-UUGC- -5'
16219 3' -56 NC_004065.1 + 41484 0.66 0.963827
Target:  5'- --aG-CGUGCGcCGGGG-CGUCGggACGg -3'
miRNA:   3'- gagCaGCACGCuGCCCCaGCAGU--UGC- -5'
16219 3' -56 NC_004065.1 + 64196 0.66 0.960541
Target:  5'- --aGUCGcagGCGGCGGGcGgaggcagUGUCGGCGg -3'
miRNA:   3'- gagCAGCa--CGCUGCCC-Ca------GCAGUUGC- -5'
16219 3' -56 NC_004065.1 + 1150 0.66 0.960541
Target:  5'- gCUCGU-GUGCGccGCGGuGGuccccauugugUCGUCGGCGc -3'
miRNA:   3'- -GAGCAgCACGC--UGCC-CC-----------AGCAGUUGC- -5'
16219 3' -56 NC_004065.1 + 73114 0.66 0.960541
Target:  5'- cCUCGUCgGUGcCGGCGGaGGaUCGggacccCGACGc -3'
miRNA:   3'- -GAGCAG-CAC-GCUGCC-CC-AGCa-----GUUGC- -5'
16219 3' -56 NC_004065.1 + 18295 0.66 0.960541
Target:  5'- cCUCGUCGaGCGGCuGGacGGUcCGUCuuCGg -3'
miRNA:   3'- -GAGCAGCaCGCUG-CC--CCA-GCAGuuGC- -5'
16219 3' -56 NC_004065.1 + 171969 0.67 0.957055
Target:  5'- -gCGgCGgcgGCGGCggaGGGGUCGUCGugaACGa -3'
miRNA:   3'- gaGCaGCa--CGCUG---CCCCAGCAGU---UGC- -5'
16219 3' -56 NC_004065.1 + 145287 0.67 0.957055
Target:  5'- cCUCGcCGaGaCGACGGGGUaaCGUCGcCGc -3'
miRNA:   3'- -GAGCaGCaC-GCUGCCCCA--GCAGUuGC- -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.