miRNA display CGI


Results 1 - 18 of 18 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
5439 5' -59 NC_001798.1 + 126321 0.66 0.813641
Target:  5'- cCCGCCCcgGGUcCCGCCgc--CGaUCCAg -3'
miRNA:   3'- aGGUGGGa-CCA-GGCGGaagaGC-AGGU- -5'
5439 5' -59 NC_001798.1 + 23426 0.66 0.786544
Target:  5'- cUCCGCCuccuccuccucguCUGcaUCCGCCUcCUCGUCUg -3'
miRNA:   3'- -AGGUGG-------------GACc-AGGCGGAaGAGCAGGu -5'
5439 5' -59 NC_001798.1 + 50962 0.66 0.769292
Target:  5'- cUCCACCC-GGUCCcauGCCc---CGUCCGc -3'
miRNA:   3'- -AGGUGGGaCCAGG---CGGaagaGCAGGU- -5'
5439 5' -59 NC_001798.1 + 59627 0.66 0.769292
Target:  5'- aCCACCCUccgCCGCCU-CggGUCCGu -3'
miRNA:   3'- aGGUGGGAccaGGCGGAaGagCAGGU- -5'
5439 5' -59 NC_001798.1 + 151122 0.67 0.760039
Target:  5'- cCCGCCCUcaccGUCgGCCaggUCaUCGUCCu -3'
miRNA:   3'- aGGUGGGAc---CAGgCGGa--AG-AGCAGGu -5'
5439 5' -59 NC_001798.1 + 77887 0.67 0.750678
Target:  5'- cUCGCCCUGGauaCgGCCUUCgCGUUUAa -3'
miRNA:   3'- aGGUGGGACCa--GgCGGAAGaGCAGGU- -5'
5439 5' -59 NC_001798.1 + 117016 0.67 0.735496
Target:  5'- gUCC-CCCUGGUCCccccgGCCcugggggccaacuacUUCUCcUCCAu -3'
miRNA:   3'- -AGGuGGGACCAGG-----CGG---------------AAGAGcAGGU- -5'
5439 5' -59 NC_001798.1 + 103702 0.67 0.731665
Target:  5'- cCCACCCacggGGcCCGCCguugUUgcgUGUCCGc -3'
miRNA:   3'- aGGUGGGa---CCaGGCGGa---AGa--GCAGGU- -5'
5439 5' -59 NC_001798.1 + 72366 0.67 0.731665
Target:  5'- aCC-CCCUGGUCCGCCagCUgGa--- -3'
miRNA:   3'- aGGuGGGACCAGGCGGaaGAgCaggu -5'
5439 5' -59 NC_001798.1 + 149483 0.68 0.702551
Target:  5'- gCgGCCCgcagcaGGUCCGCCacguuccccgUCUgGUCCAc -3'
miRNA:   3'- aGgUGGGa-----CCAGGCGGa---------AGAgCAGGU- -5'
5439 5' -59 NC_001798.1 + 95591 0.68 0.692722
Target:  5'- --gGCCCUGGUCaGCCagCUCGgcgCCGc -3'
miRNA:   3'- aggUGGGACCAGgCGGaaGAGCa--GGU- -5'
5439 5' -59 NC_001798.1 + 24479 0.68 0.672927
Target:  5'- gCCGCCCUGGggCGCCUgagCgccgCGcCCGc -3'
miRNA:   3'- aGGUGGGACCagGCGGAa--Ga---GCaGGU- -5'
5439 5' -59 NC_001798.1 + 146980 0.68 0.662978
Target:  5'- uUCCGCgCCUccgagGGUCCGCC-UCUUG-CCu -3'
miRNA:   3'- -AGGUG-GGA-----CCAGGCGGaAGAGCaGGu -5'
5439 5' -59 NC_001798.1 + 128450 0.69 0.643017
Target:  5'- -gCGCgCagGGUCCGUgCUUCUCGUCCc -3'
miRNA:   3'- agGUGgGa-CCAGGCG-GAAGAGCAGGu -5'
5439 5' -59 NC_001798.1 + 152241 0.69 0.63302
Target:  5'- gCCGCUCggggccggGGUCCGCCcgggagCUCGUgCCGg -3'
miRNA:   3'- aGGUGGGa-------CCAGGCGGaa----GAGCA-GGU- -5'
5439 5' -59 NC_001798.1 + 100875 0.69 0.622023
Target:  5'- gCCGgCCUGGUCgCgGCCUUCUucgccuuccgcuaCGUCCu -3'
miRNA:   3'- aGGUgGGACCAG-G-CGGAAGA-------------GCAGGu -5'
5439 5' -59 NC_001798.1 + 137944 0.7 0.563416
Target:  5'- gCCGCCC-GGUCCGCCgcgcgcugCUCccgcUCCAg -3'
miRNA:   3'- aGGUGGGaCCAGGCGGaa------GAGc---AGGU- -5'
5439 5' -59 NC_001798.1 + 109636 0.71 0.528353
Target:  5'- aCCGCCCcgaUGGUCCGCCgagcgCUguuuuacgccacggcCGUCCu -3'
miRNA:   3'- aGGUGGG---ACCAGGCGGaa---GA---------------GCAGGu -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.