miRNA display CGI


Results 1 - 20 of 90 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
21261 3' -59.6 NC_004778.3 + 34408 0.66 0.728055
Target:  5'- -gGCCGG-GCUGCuccgGCAGCgCGGCg- -3'
miRNA:   3'- cgCGGCUgCGACGu---UGUCGaGCCGga -5'
21261 3' -59.6 NC_004778.3 + 41211 0.66 0.728055
Target:  5'- cGCGCUgGACGC-GCGACuGCgagCGGUg- -3'
miRNA:   3'- -CGCGG-CUGCGaCGUUGuCGa--GCCGga -5'
21261 3' -59.6 NC_004778.3 + 43121 0.66 0.718251
Target:  5'- uGCGCaaGCGCUuCGACGGCgccgCGGCg- -3'
miRNA:   3'- -CGCGgcUGCGAcGUUGUCGa---GCCGga -5'
21261 3' -59.6 NC_004778.3 + 117101 0.66 0.717266
Target:  5'- uGCGgCGACGCUGgGccgucgacaaugaGCAGUUCGaGCa- -3'
miRNA:   3'- -CGCgGCUGCGACgU-------------UGUCGAGC-CGga -5'
21261 3' -59.6 NC_004778.3 + 57952 0.66 0.708374
Target:  5'- cGCGCCuGCGCUGCGcUGGCUgcaaagccaUGGCa- -3'
miRNA:   3'- -CGCGGcUGCGACGUuGUCGA---------GCCGga -5'
21261 3' -59.6 NC_004778.3 + 26539 0.66 0.708374
Target:  5'- gGCGCCGGCaaguauuucGCUaGCGugGuGCgcaCGGCCg -3'
miRNA:   3'- -CGCGGCUG---------CGA-CGUugU-CGa--GCCGGa -5'
21261 3' -59.6 NC_004778.3 + 82419 0.66 0.708374
Target:  5'- uGCGCa-ACGuUUGCAGCAGCgaaUUGGUCUg -3'
miRNA:   3'- -CGCGgcUGC-GACGUUGUCG---AGCCGGA- -5'
21261 3' -59.6 NC_004778.3 + 60483 0.66 0.708374
Target:  5'- uCGUCGACGCU-CAGCuGC-CGcGCCUc -3'
miRNA:   3'- cGCGGCUGCGAcGUUGuCGaGC-CGGA- -5'
21261 3' -59.6 NC_004778.3 + 33116 0.66 0.708374
Target:  5'- aCGUCGACGCgGCcgcACAGCcacgCGGCg- -3'
miRNA:   3'- cGCGGCUGCGaCGu--UGUCGa---GCCGga -5'
21261 3' -59.6 NC_004778.3 + 93167 0.66 0.708374
Target:  5'- uGCGuuGGgGCUGCuGC-GCguucacgCGGCCg -3'
miRNA:   3'- -CGCggCUgCGACGuUGuCGa------GCCGGa -5'
21261 3' -59.6 NC_004778.3 + 96458 0.66 0.702417
Target:  5'- cGCGCCaauccauaugcacgcGGCauuGCUGCAAUuuucGCUCGGCg- -3'
miRNA:   3'- -CGCGG---------------CUG---CGACGUUGu---CGAGCCGga -5'
21261 3' -59.6 NC_004778.3 + 60585 0.66 0.698434
Target:  5'- -aGCUG-CGCaGCAGCAcgaUCGGCCUg -3'
miRNA:   3'- cgCGGCuGCGaCGUUGUcg-AGCCGGA- -5'
21261 3' -59.6 NC_004778.3 + 95903 0.66 0.698434
Target:  5'- aGCGcCCGGCGCgGCuccaaaucuuGAUGGCggGGCCg -3'
miRNA:   3'- -CGC-GGCUGCGaCG----------UUGUCGagCCGGa -5'
21261 3' -59.6 NC_004778.3 + 76666 0.66 0.697437
Target:  5'- gGCGCCGaaaccGCGUUGuCAuuugaaaacugccGCAGCUUGGUUa -3'
miRNA:   3'- -CGCGGC-----UGCGAC-GU-------------UGUCGAGCCGGa -5'
21261 3' -59.6 NC_004778.3 + 71214 0.66 0.688439
Target:  5'- -gGCCGcUG-UGCAGCGGCUggacgCGGCCUc -3'
miRNA:   3'- cgCGGCuGCgACGUUGUCGA-----GCCGGA- -5'
21261 3' -59.6 NC_004778.3 + 111044 0.66 0.678398
Target:  5'- uGgGCCaGGCGCUGgcCAGCAGUUCGcuguacacgcGCCUc -3'
miRNA:   3'- -CgCGG-CUGCGAC--GUUGUCGAGC----------CGGA- -5'
21261 3' -59.6 NC_004778.3 + 118768 0.67 0.66832
Target:  5'- cGUGCC-ACGCUucggGC-GCGGCgCGGCCg -3'
miRNA:   3'- -CGCGGcUGCGA----CGuUGUCGaGCCGGa -5'
21261 3' -59.6 NC_004778.3 + 90031 0.67 0.66832
Target:  5'- uGCGCCcaccACGCUGCAcaGCGGCaacaucuccgCGGCa- -3'
miRNA:   3'- -CGCGGc---UGCGACGU--UGUCGa---------GCCGga -5'
21261 3' -59.6 NC_004778.3 + 60366 0.67 0.66832
Target:  5'- cGCGCCa--GCUcCAGCGGUUUGGUCUu -3'
miRNA:   3'- -CGCGGcugCGAcGUUGUCGAGCCGGA- -5'
21261 3' -59.6 NC_004778.3 + 112971 0.67 0.667311
Target:  5'- cGCGCauuACGUUGUAGCAGCUUGcuccgaaacuggcGCCg -3'
miRNA:   3'- -CGCGgc-UGCGACGUUGUCGAGC-------------CGGa -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.